From 008bec4c73a361c67700a4c0fd2637196ee6fa22 Mon Sep 17 00:00:00 2001
From: Elizabeth Paige Harper <foxcapades.io@gmail.com>
Date: Thu, 12 Sep 2024 17:24:11 -0400
Subject: [PATCH] prep for publish

---
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 .../-blast-n/tool.html                        |   85 +
 .../-blast-p/index.html                       | 4384 +++++++++++++++++
 .../-blast-p/tool.html                        |   85 +
 .../-blast-x/index.html                       | 4384 +++++++++++++++++
 .../-blast-x/tool.html                        |   85 +
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 .../-cluster-realign/tool.html                |   85 +
 .../-cluster/index.html                       | 3094 ++++++++++++
 .../-cluster/tool.html                        |   85 +
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 .../-deep-clustering/index.html               | 3094 ++++++++++++
 .../-deep-clustering/tool.html                |   85 +
 .../-diamond-command-config/index.html        |  109 +
 .../-diamond-command-config/tool.html         |   85 +
 .../-get-seq/index.html                       | 2704 ++++++++++
 .../-get-seq/seq.html                         |   85 +
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 .../-linear-cluster/index.html                | 3094 ++++++++++++
 .../-linear-cluster/tool.html                 |   85 +
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 .../-make-d-b/input-file.html                 |   85 +
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 .../-make-index/index.html                    | 2824 +++++++++++
 .../-make-index/tool.html                     |   85 +
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 .../-merge-d-a-a/input-files.html             |   85 +
 .../-merge-d-a-a/tool.html                    |   85 +
 .../-prep-d-b/index.html                      | 2674 ++++++++++
 .../-prep-d-b/tool.html                       |   85 +
 .../-reassign-clusters/index.html             | 3049 ++++++++++++
 .../-reassign-clusters/tool.html              |   85 +
 .../-recompute-clustering/index.html          | 3049 ++++++++++++
 .../-recompute-clustering/tool.html           |   85 +
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 .../-view/index.html                          | 2809 +++++++++++
 .../-view/input-file.html                     |   85 +
 .../-view/tool.html                           |   85 +
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 .../-blast-tab-format-base/format-fields.html |   85 +
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 .../-format-field/-ungapped-score/index.html  |  173 +
 .../-format-field/entries.html                |   85 +
 .../-format-field/index.html                  | 1396 ++++++
 .../-format-field/json-value.html             |   85 +
 .../-format-field/key.html                    |   85 +
 .../-format-field/to-string.html              |   85 +
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 .../-json-flat-format/-json-flat-format.html  |   85 +
 .../-json-flat-format/format-fields.html      |   85 +
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 .../-output-format/-blast-tab/index.html      |  248 +
 .../-output-format/-clustering/index.html     |  248 +
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 .../-companion/from-string-or-null.html       |   85 +
 .../-companion/from-string.html               |   85 +
 .../-output-format/-companion/index.html      |  139 +
 .../-diamond-alignment-archive/index.html     |  248 +
 .../-output-format/-edge/index.html           |  248 +
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 .../-sequence-alignment-map/index.html        |  248 +
 .../-output-format/-taxon/index.html          |  248 +
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 .../-output-format/accepts-format-params.html |   85 +
 .../-output-format/cli-value.html             |   85 +
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 .../-output-format/has-int-form.html          |   85 +
 .../-output-format/has-string-form.html       |   85 +
 .../-output-format/index.html                 |  496 ++
 .../-output-format/int-form.html              |   85 +
 .../-output-format/json-value.html            |   85 +
 .../-output-format/string-form.html           |   85 +
 .../-output-format/to-string.html             |   85 +
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 .../-companion/-bin1.html                     |   85 +
 .../-companion/-clustering.html               |   85 +
 .../-companion/-d-a-a.html                    |   85 +
 .../-diamond-alignment-archive.html           |   85 +
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 .../-companion/-p-a-f.html                    |   85 +
 .../-companion/-pairwise-mapping-format.html  |   85 +
 .../-companion/-pairwise.html                 |   85 +
 .../-companion/-s-a-m.html                    |   85 +
 .../-companion/-sequence-alignment-map.html   |   85 +
 .../-companion/-taxonomic-classification.html |   85 +
 .../-companion/-x-m-l.html                    |   85 +
 .../-companion/from-json.html                 |   85 +
 .../-companion/from-string-or-null.html       |   85 +
 .../-companion/from-string.html               |   85 +
 .../-companion/index.html                     |  338 ++
 .../-simple-output-format/format-type.html    |   85 +
 .../-simple-output-format/index.html          |  162 +
 .../-simple-output-format/json-value.html     |   85 +
 .../-simple-output-format/to-string.html      |   85 +
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 .../db-size.html                              |   85 +
 .../ext-chunk-size.html                       |   85 +
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 .../no-auto-append.html                       |   85 +
 .../no-ranking.html                           |   85 +
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 .../file-buffer-size.html                     |   85 +
 .../ignore-warnings.html                      |   85 +
 .../index.html                                |  154 +
 .../no-parse-seq-i-ds.html                    |   85 +
 .../no-unlink.html                            |   85 +
 .../algo.html                                 |   85 +
 .../align-long-reads.html                     |   85 +
 .../band.html                                 |   85 +
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 .../chain-pen-gap-scale.html                  |   85 +
 .../chain-pen-skip-scale.html                 |   85 +
 .../chaining-out.html                         |   85 +
 .../check-multi-target.html                   |   85 +
 .../culling-overlap.html                      |   85 +
 .../cut-bar.html                              |   85 +
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 .../freq-standard-deviation.html              |   85 +
 .../gapped-filter-e-value.html                |   85 +
 .../heartbeat.html                            |   85 +
 .../-advanced-query-option-container/id2.html |   85 +
 .../index.html                                |  754 +++
 .../lin-stage1.html                           |   85 +
 .../linsearch.html                            |   85 +
 .../log-e-value-scale.html                    |   85 +
 .../min-orf.html                              |   85 +
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 .../query-parallel-limit.html                 |   85 +
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 .../repetition-cutoff.html                    |   85 +
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 .../sam-query-len.html                        |   85 +
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 .../unaligned-targets.html                    |   85 +
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 .../xml-bl-ord-format.html                    |   85 +
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 .../approx-identity.html                      |   85 +
 .../expect-value.html                         |   85 +
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 .../motif-masking.html                        |   85 +
 .../comp-based-stats.html                     |   85 +
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 .../no-block-size-limit.html                  |   85 +
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 .../aligned-file.html                         |   85 +
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 .../include-full-subject-titles.html          |   85 +
 .../index-chunks.html                         |   85 +
 .../index.html                                |  604 +++
 .../iterate.html                              |   85 +
 .../long-reads.html                           |   85 +
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 .../max-h-s-ps.html                           |   85 +
 .../min-score.html                            |   85 +
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 .../query-gen-code.html                       |   85 +
 .../query.html                                |   85 +
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 .../seq-id-list.html                          |   85 +
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 .../strand.html                               |   85 +
 .../swipe.html                                |   85 +
 .../taxon-exclude.html                        |   85 +
 .../taxon-list.html                           |   85 +
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 .../unaligned-file.html                       |   85 +
 .../fast.html                                 |   85 +
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 .../index.html                                |  244 +
 .../mid-sensitive.html                        |   85 +
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 .../sensitivity.html                          |   85 +
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 .../shapes30x10.html                          |   85 +
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 .../very-sensitive.html                       |   85 +
 .../-aligner-view-option-container/index.html |  124 +
 .../max-target-seqs.html                      |   85 +
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 .../-benchmark-type/index.html                |  361 ++
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 .../cluster-steps.html                        |   85 +
 .../index.html                                |  154 +
 .../kmer-ranking.html                         |   85 +
 .../round-approx-i-d.html                     |   85 +
 .../round-coverage.html                       |   85 +
 .../clusters-file.html                        |   85 +
 .../index.html                                |  109 +
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 .../memory-limit.html                         |   85 +
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 .../-companion/from-int.html                  |   85 +
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 .../-composition-based-stats/cli-value.html   |   85 +
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 .../-composition-based-stats/index.html       |  391 ++
 .../-composition-based-stats/json-name.html   |   85 +
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 .../-k-s-w/index.html                         |  158 +
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 .../-distribution-type/-bit-score/index.html  |  158 +
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 .../-companion/from-string.html               |   85 +
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 .../-extension-mode/index.html                |  301 ++
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 .../-extension-mode/value.html                |   85 +
 .../-extension-mode/values.html               |   85 +
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 .../-output-format/index.html                 |  446 ++
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 create mode 100644 docs/dokka/v0.2.0/version.json

diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html
new file mode 100644
index 00000000..4c703591
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html
@@ -0,0 +1,3394 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastN</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastN///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>N</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">interface </span><a href="index.html">BlastN</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr></wbr><span>Long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Gap</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Skip</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr></wbr><span>Multi</span><wbr></wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr></wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr></wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr></wbr><span>Standard</span><wbr></wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr></wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr></wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr></wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr></wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr></wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr></wbr><span>Or</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr></wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr></wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr></wbr><span>Match</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr></wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr></wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1481834445%2FProperties%2F769193423" anchor-label="tool" id="-1481834445%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1481834445%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr></wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr></wbr><span>Bl</span><wbr></wbr><span>Ord</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html
new file mode 100644
index 00000000..a1b2e705
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastN/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastN</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html
new file mode 100644
index 00000000..39853f45
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html
@@ -0,0 +1,4384 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastP</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastP///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>P</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">BlastP</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html"><span>aligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html"><span>aligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr></wbr><span>Long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html"><span>block</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Gap</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Skip</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr></wbr><span>Multi</span><wbr></wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">compress</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html"><span>custom</span><wbr></wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr></wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr></wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable fast mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable faster mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html"><span>frame</span><wbr></wbr><span>Shift</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr></wbr><span>Standard</span><wbr></wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html"><span>gap</span><wbr></wbr><span>Extend</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html"><span>gap</span><wbr></wbr><span>Open</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html"><span>global</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html"><span>include</span><wbr></wbr><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html"><span>include</span><wbr></wbr><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr></wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html"><span>index</span><wbr></wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr></wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html"><span>long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">matrix</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html"><span>max</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr></wbr><span>Target</span><wbr></wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable mid-sensitive mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html"><span>minimum</span><wbr></wbr><span>Identity</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Query</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr></wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html"><span>min</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable more sensitive mode // <code class="lang-kotlin">--more-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_more_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr></wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr></wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr></wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html"><span>no</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html"><span>parallel</span><wbr></wbr><span>Tmp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html"><span>query</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr></wbr><span>Or</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html"><span>range</span><wbr></wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr></wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable sensitive mode) // <code class="lang-kotlin">--sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html"><span>seq</span><wbr></wbr><span>Id</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr></wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">// number of seed shapes (default=all available) // <code class="lang-kotlin">--shapes</code> | <code class="lang-kotlin">-s</code> // Default = `` // Type = <code class="lang-kotlin">unsigned</code> // Config Var = <code class="lang-kotlin">shapes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable mode using 30 seed shapes of weight 10 // <code class="lang-kotlin">--shapes-30x10</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_shapes30x10</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html"><span>skip</span><wbr></wbr><span>Missing</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr></wbr><span>Match</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">strand</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr></wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html"><span>taxon</span><wbr></wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr></wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html"><span>taxon</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-780234571%2FProperties%2F769193423" anchor-label="tool" id="-780234571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-780234571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable ultra sensitive mode // <code class="lang-kotlin">--ultra-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_ultra_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html"><span>unaligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html"><span>unaligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr></wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable very sensitive mode // <code class="lang-kotlin">--very-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_very_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr></wbr><span>Bl</span><wbr></wbr><span>Ord</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html
new file mode 100644
index 00000000..a67f650a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastP/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastP</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html
new file mode 100644
index 00000000..571298b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html
@@ -0,0 +1,4384 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastX</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastX///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>X</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">BlastX</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html"><span>aligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html"><span>aligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr></wbr><span>Long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html"><span>block</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Gap</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Skip</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr></wbr><span>Multi</span><wbr></wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">compress</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html"><span>custom</span><wbr></wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr></wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr></wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable fast mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable faster mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html"><span>frame</span><wbr></wbr><span>Shift</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr></wbr><span>Standard</span><wbr></wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html"><span>gap</span><wbr></wbr><span>Extend</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html"><span>gap</span><wbr></wbr><span>Open</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html"><span>global</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html"><span>include</span><wbr></wbr><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html"><span>include</span><wbr></wbr><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr></wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html"><span>index</span><wbr></wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr></wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html"><span>long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">matrix</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html"><span>max</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr></wbr><span>Target</span><wbr></wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable mid-sensitive mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html"><span>minimum</span><wbr></wbr><span>Identity</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Query</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr></wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html"><span>min</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable more sensitive mode // <code class="lang-kotlin">--more-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_more_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr></wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr></wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr></wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html"><span>no</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html"><span>parallel</span><wbr></wbr><span>Tmp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html"><span>query</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr></wbr><span>Or</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html"><span>range</span><wbr></wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr></wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable sensitive mode) // <code class="lang-kotlin">--sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html"><span>seq</span><wbr></wbr><span>Id</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr></wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">// number of seed shapes (default=all available) // <code class="lang-kotlin">--shapes</code> | <code class="lang-kotlin">-s</code> // Default = `` // Type = <code class="lang-kotlin">unsigned</code> // Config Var = <code class="lang-kotlin">shapes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable mode using 30 seed shapes of weight 10 // <code class="lang-kotlin">--shapes-30x10</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_shapes30x10</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html"><span>skip</span><wbr></wbr><span>Missing</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr></wbr><span>Match</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">strand</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr></wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html"><span>taxon</span><wbr></wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr></wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html"><span>taxon</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2026164925%2FProperties%2F769193423" anchor-label="tool" id="2026164925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2026164925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable ultra sensitive mode // <code class="lang-kotlin">--ultra-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_ultra_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html"><span>unaligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html"><span>unaligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr></wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable very sensitive mode // <code class="lang-kotlin">--very-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_very_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr></wbr><span>Bl</span><wbr></wbr><span>Ord</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html
new file mode 100644
index 00000000..e290e5d0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastX/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastX</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html
new file mode 100644
index 00000000..0edbcb91
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html
@@ -0,0 +1,2824 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusterRealign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/ClusterRealign///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">ClusterRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cluster</span><wbr></wbr><span><span>Realign</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusterRealign</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr></wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1397986741%2FProperties%2F769193423" anchor-label="tool" id="1397986741%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1397986741%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html
new file mode 100644
index 00000000..c94825f6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/ClusterRealign/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">ClusterRealign</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html
new file mode 100644
index 00000000..fc2fa597
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html
@@ -0,0 +1,3094 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cluster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/Cluster///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">Cluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">Cluster</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr></wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1137818967%2FProperties%2F769193423" anchor-label="tool" id="-1137818967%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1137818967%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html
new file mode 100644
index 00000000..698c8a8f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/Cluster/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">Cluster</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html
new file mode 100644
index 00000000..6b83a66a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html
@@ -0,0 +1,2674 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBInfo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DBInfo///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DBInfo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBInfo</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">DBInfo</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1077330295%2FProperties%2F769193423" anchor-label="tool" id="-1077330295%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1077330295%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html
new file mode 100644
index 00000000..9aee19e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DBInfo/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DBInfo</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html
new file mode 100644
index 00000000..d2a3dcce
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html
@@ -0,0 +1,3094 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DeepClustering</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DeepClustering///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DeepClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Deep</span><wbr></wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">DeepClustering</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr></wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888279313%2FProperties%2F769193423" anchor-label="tool" id="888279313%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888279313%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html
new file mode 100644
index 00000000..2dfa0c7c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DeepClustering/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DeepClustering</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html
new file mode 100644
index 00000000..aad35ffa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondCommandConfig</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DiamondCommandConfig</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span>Command</span><wbr></wbr><span><span>Config</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">interface </span><a href="index.html">DiamondCommandConfig</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1652776150%2FProperties%2F769193423" anchor-label="tool" id="1652776150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1652776150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html
new file mode 100644
index 00000000..b228efd1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DiamondCommandConfig</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html
new file mode 100644
index 00000000..79429dc7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html
@@ -0,0 +1,2704 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GetSeq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">GetSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Get</span><wbr></wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GetSeq</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1057984387%2FProperties%2F769193423" anchor-label="seq" id="-1057984387%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seq.html"><span><span>seq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1057984387%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq.html">seq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Space-separated list of sequence numbers to display.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-866153274%2FProperties%2F769193423" anchor-label="tool" id="-866153274%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-866153274%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html
new file mode 100644
index 00000000..ee2b3623
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="seq.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq/seq/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GetSeq</a><span class="delimiter">/</span><span class="current">seq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>seq</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq.html">seq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a><span class="token operator">&gt;</span></div><p class="paragraph">Space-separated list of sequence numbers to display.</p><p class="paragraph">Flag: <code class="lang-kotlin">--seq</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html
new file mode 100644
index 00000000..775ec6a9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GetSeq</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html
new file mode 100644
index 00000000..51cb4fa6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>centroidOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="centroid-out.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/centroidOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">centroidOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>centroid</span><wbr></wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-out.html">centroidOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Output file for centroids</p><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html
new file mode 100644
index 00000000..3797294b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>connectedComponentDepth</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="connected-component-depth.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/connectedComponentDepth/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">connectedComponentDepth</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>connected</span><wbr></wbr><span>Component</span><wbr></wbr><span><span>Depth</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="connected-component-depth.html">connectedComponentDepth</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Depth to cluster connected components.</p><p class="paragraph">Flag: <code class="lang-kotlin">--connected-component-depth</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html
new file mode 100644
index 00000000..50630e1c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>edgeFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="edge-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/edgeFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">edgeFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>edge</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edge-format.html">edgeFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div><p class="paragraph">Edge format for greedy vertex cover.</p><p class="paragraph">Flag: <code class="lang-kotlin">--edge-format</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html
new file mode 100644
index 00000000..9dd36c97
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>edges</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="edges.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/edges/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">edges</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>edges</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edges.html">edges</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Input file for greedy vertex cover</p><p class="paragraph">Flag: <code class="lang-kotlin">--edges</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..0b81fece
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html
@@ -0,0 +1,2839 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr></wbr><span>Vortex</span><wbr></wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GreedyVortexCover</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-552239172%2FProperties%2F769193423" anchor-label="centroidOut" id="-552239172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="centroid-out.html"><span>centroid</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-552239172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-out.html">centroidOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Output file for centroids</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="203786651%2FProperties%2F769193423" anchor-label="connectedComponentDepth" id="203786651%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="connected-component-depth.html"><span>connected</span><wbr></wbr><span>Component</span><wbr></wbr><span><span>Depth</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="203786651%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="connected-component-depth.html">connectedComponentDepth</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Depth to cluster connected components.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1903393500%2FProperties%2F769193423" anchor-label="edgeFormat" id="1903393500%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="edge-format.html"><span>edge</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1903393500%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edge-format.html">edgeFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div><div class="brief "><p class="paragraph">Edge format for greedy vertex cover.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="782432660%2FProperties%2F769193423" anchor-label="edges" id="782432660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="edges.html"><span><span>edges</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="782432660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edges.html">edges</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Input file for greedy vertex cover</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1188511757%2FProperties%2F769193423" anchor-label="noReassign" id="1188511757%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reassign.html"><span>no</span><wbr></wbr><span><span>Reassign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1188511757%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reassign.html">noReassign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not reassign to the closest representative.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851415379%2FProperties%2F769193423" anchor-label="symmetric" id="851415379%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="symmetric.html"><span><span>symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851415379%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="symmetric.html">symmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Edges are symmetric</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1839226856%2FProperties%2F769193423" anchor-label="tool" id="-1839226856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1839226856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html
new file mode 100644
index 00000000..534ae642
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReassign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-reassign.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/noReassign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">noReassign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Reassign</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reassign.html">noReassign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not reassign to the closest representative.</p><p class="paragraph">Flag: <code class="lang-kotlin">--no-reassign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html
new file mode 100644
index 00000000..1580d480
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>symmetric</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="symmetric.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/symmetric/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">symmetric</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>symmetric</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="symmetric.html">symmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Edges are symmetric</p><p class="paragraph">Flag: <code class="lang-kotlin">--symmetric</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html
new file mode 100644
index 00000000..e055b9e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html
new file mode 100644
index 00000000..4a0c1d0d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html
@@ -0,0 +1,3094 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LinearCluster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/LinearCluster///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">LinearCluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Linear</span><wbr></wbr><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">LinearCluster</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr></wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-969146428%2FProperties%2F769193423" anchor-label="tool" id="-969146428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-969146428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html
new file mode 100644
index 00000000..0b01b21f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/LinearCluster/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">LinearCluster</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html
new file mode 100644
index 00000000..5ed8aa5f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html
@@ -0,0 +1,2794 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeDB</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MakeDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr></wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MakeDB</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1626615411%2FProperties%2F769193423" anchor-label="inputFile" id="1626615411%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-file.html"><span>input</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1626615411%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the input protein reference database file in FASTA format (may be gzip compressed).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2063520045%2FProperties%2F769193423" anchor-label="taxonMapFile" id="-2063520045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-map-file.html"><span>taxon</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2063520045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-map-file.html">taxonMapFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to mapping file that maps NCBI protein accession numbers to taxon ids (gzip compressed).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="513919207%2FProperties%2F769193423" anchor-label="taxonNamesFile" id="513919207%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-names-file.html"><span>taxon</span><wbr></wbr><span>Names</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="513919207%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-names-file.html">taxonNamesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the <code class="lang-kotlin">names.dmp</code> file from the NCBI taxonomy.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="918278686%2FProperties%2F769193423" anchor-label="taxonNodesFile" id="918278686%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-nodes-file.html"><span>taxon</span><wbr></wbr><span>Nodes</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="918278686%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-nodes-file.html">taxonNodesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the <code class="lang-kotlin">nodes.dmp</code> file from the NCBI taxonomy.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="948974409%2FProperties%2F769193423" anchor-label="tool" id="948974409%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="948974409%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html
new file mode 100644
index 00000000..85f47e2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="input-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/inputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">inputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the input protein reference database file in FASTA format (may be gzip compressed).</p><p class="paragraph">If this parameter is omitted, the input will be read from stdin.</p><p class="paragraph">Flag: <code class="lang-kotlin">--in</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html
new file mode 100644
index 00000000..d378675a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonMapFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-map-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonMapFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonMapFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-map-file.html">taxonMapFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to mapping file that maps NCBI protein accession numbers to taxon ids (gzip compressed).</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">A file can be downloaded from NCBI, or a custom file following the same format may be supplied here. Note that the first line of this file is assumed to contain headings and will be ignored.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonmap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html
new file mode 100644
index 00000000..999c8101
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonNamesFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-names-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonNamesFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonNamesFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span>Names</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-names-file.html">taxonNamesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the <code class="lang-kotlin">names.dmp</code> file from the NCBI taxonomy.</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">The file is contained within this archive downloadable at NCBI.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonnames</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html
new file mode 100644
index 00000000..417e6155
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonNodesFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-nodes-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonNodesFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonNodesFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span>Nodes</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-nodes-file.html">taxonNodesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the <code class="lang-kotlin">nodes.dmp</code> file from the NCBI taxonomy.</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">The file is contained within this archive downloadable at NCBI.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonnodes</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html
new file mode 100644
index 00000000..d06d64e3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html
new file mode 100644
index 00000000..390cee28
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html
@@ -0,0 +1,2824 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeIndex</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeIndex///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MakeIndex</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr></wbr><span><span>Index</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MakeIndex</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable fast mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable faster mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable mid-sensitive mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable more sensitive mode // <code class="lang-kotlin">--more-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_more_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable sensitive mode) // <code class="lang-kotlin">--sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">// number of seed shapes (default=all available) // <code class="lang-kotlin">--shapes</code> | <code class="lang-kotlin">-s</code> // Default = `` // Type = <code class="lang-kotlin">unsigned</code> // Config Var = <code class="lang-kotlin">shapes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable mode using 30 seed shapes of weight 10 // <code class="lang-kotlin">--shapes-30x10</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_shapes30x10</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803391603%2FProperties%2F769193423" anchor-label="tool" id="803391603%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803391603%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable ultra sensitive mode // <code class="lang-kotlin">--ultra-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_ultra_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable very sensitive mode // <code class="lang-kotlin">--very-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_very_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html
new file mode 100644
index 00000000..5d711858
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeIndex/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeIndex</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html
new file mode 100644
index 00000000..fb8d3544
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html
@@ -0,0 +1,2689 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MergeDAA</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MergeDAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Merge</span><wbr></wbr><span><span>DAA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MergeDAA</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-564912588%2FProperties%2F769193423" anchor-label="inputFiles" id="-564912588%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-files.html"><span>input</span><wbr></wbr><span><span>Files</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-564912588%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-files.html">inputFiles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="338635465%2FProperties%2F769193423" anchor-label="tool" id="338635465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="338635465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html
new file mode 100644
index 00000000..309e2f9e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFiles</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="input-files.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA/inputFiles/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MergeDAA</a><span class="delimiter">/</span><span class="current">inputFiles</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr></wbr><span><span>Files</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-files.html">inputFiles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html
new file mode 100644
index 00000000..64c7f817
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MergeDAA</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html
new file mode 100644
index 00000000..be647b53
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html
@@ -0,0 +1,2674 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PrepDB</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/PrepDB///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">PrepDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Prep</span><wbr></wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">PrepDB</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1664684936%2FProperties%2F769193423" anchor-label="tool" id="1664684936%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1664684936%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html
new file mode 100644
index 00000000..cc329e34
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/PrepDB/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">PrepDB</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html
new file mode 100644
index 00000000..7dffed72
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html
@@ -0,0 +1,3049 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReassignClusters</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/ReassignClusters///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">ReassignClusters</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reassign</span><wbr></wbr><span><span>Clusters</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ReassignClusters</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="294249496%2FProperties%2F769193423" anchor-label="tool" id="294249496%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294249496%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html
new file mode 100644
index 00000000..2d3d391d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/ReassignClusters/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">ReassignClusters</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html
new file mode 100644
index 00000000..58977456
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html
@@ -0,0 +1,3049 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RecomputeClustering</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/RecomputeClustering///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">RecomputeClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Recompute</span><wbr></wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">RecomputeClustering</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr></wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1361622299%2FProperties%2F769193423" anchor-label="tool" id="1361622299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1361622299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html
new file mode 100644
index 00000000..80d23f3c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/RecomputeClustering/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">RecomputeClustering</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html
new file mode 100644
index 00000000..d27e1188
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>forwardOnly</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="forward-only.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/forwardOnly/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">forwardOnly</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>forward</span><wbr></wbr><span><span>Only</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="forward-only.html">forwardOnly</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only show alignments of forward strand.</p><p class="paragraph">Flag: <code class="lang-kotlin">--forwardonly</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html
new file mode 100644
index 00000000..bdf35c8d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html
@@ -0,0 +1,2809 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>View</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/View///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">View</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>View</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">View</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="987189327%2FProperties%2F769193423" anchor-label="forwardOnly" id="987189327%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="forward-only.html"><span>forward</span><wbr></wbr><span><span>Only</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="987189327%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="forward-only.html">forwardOnly</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only show alignments of forward strand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr></wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1217093210%2FProperties%2F769193423" anchor-label="inputFile" id="1217093210%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-file.html"><span>input</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1217093210%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr></wbr><span>Target</span><wbr></wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-430543102%2FProperties%2F769193423" anchor-label="tool" id="-430543102%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-430543102%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html
new file mode 100644
index 00000000..8e9bd5f8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="input-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/inputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">inputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html
new file mode 100644
index 00000000..d2704ec9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tool.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html
new file mode 100644
index 00000000..4a706761
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html
@@ -0,0 +1,363 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.commands</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.commands////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.commands</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-2128169164%2FClasslikes%2F769193423" anchor-label="BlastN" id="-2128169164%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-n/index.html"><span>Blast</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2128169164%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">interface </span><a href="-blast-n/index.html">BlastN</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2066129550%2FClasslikes%2F769193423" anchor-label="BlastP" id="-2066129550%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-p/index.html"><span>Blast</span><wbr></wbr><span><span>P</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2066129550%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-blast-p/index.html">BlastP</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1817971094%2FClasslikes%2F769193423" anchor-label="BlastX" id="-1817971094%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-x/index.html"><span>Blast</span><wbr></wbr><span><span>X</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1817971094%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-blast-x/index.html">BlastX</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1492599550%2FClasslikes%2F769193423" anchor-label="Cluster" id="1492599550%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster/index.html"><span><span>Cluster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1492599550%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cluster/index.html">Cluster</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="959789170%2FClasslikes%2F769193423" anchor-label="ClusterRealign" id="959789170%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster-realign/index.html"><span>Cluster</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="959789170%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cluster-realign/index.html">ClusterRealign</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363223838%2FClasslikes%2F769193423" anchor-label="DBInfo" id="363223838%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-info/index.html"><span><span>DBInfo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363223838%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-d-b-info/index.html">DBInfo</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2119570326%2FClasslikes%2F769193423" anchor-label="DeepClustering" id="2119570326%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deep-clustering/index.html"><span>Deep</span><wbr></wbr><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2119570326%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-deep-clustering/index.html">DeepClustering</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="811319473%2FClasslikes%2F769193423" anchor-label="DiamondCommandConfig" id="811319473%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-command-config/index.html"><span>Diamond</span><wbr></wbr><span>Command</span><wbr></wbr><span><span>Config</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="811319473%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">interface </span><a href="-diamond-command-config/index.html">DiamondCommandConfig</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1061332287%2FClasslikes%2F769193423" anchor-label="GetSeq" id="-1061332287%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-get-seq/index.html"><span>Get</span><wbr></wbr><span><span>Seq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1061332287%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-get-seq/index.html">GetSeq</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1521550289%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="-1521550289%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html"><span>Greedy</span><wbr></wbr><span>Vortex</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1521550289%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-158826237%2FClasslikes%2F769193423" anchor-label="LinearCluster" id="-158826237%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-linear-cluster/index.html"><span>Linear</span><wbr></wbr><span><span>Cluster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-158826237%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-linear-cluster/index.html">LinearCluster</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-66490786%2FClasslikes%2F769193423" anchor-label="MakeDB" id="-66490786%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-d-b/index.html"><span>Make</span><wbr></wbr><span><span>DB</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-66490786%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-make-d-b/index.html">MakeDB</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-201013516%2FClasslikes%2F769193423" anchor-label="MakeIndex" id="-201013516%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-index/index.html"><span>Make</span><wbr></wbr><span><span>Index</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-201013516%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-make-index/index.html">MakeIndex</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-540162338%2FClasslikes%2F769193423" anchor-label="MergeDAA" id="-540162338%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-merge-d-a-a/index.html"><span>Merge</span><wbr></wbr><span><span>DAA</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-540162338%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-merge-d-a-a/index.html">MergeDAA</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1487461697%2FClasslikes%2F769193423" anchor-label="PrepDB" id="-1487461697%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-prep-d-b/index.html"><span>Prep</span><wbr></wbr><span><span>DB</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1487461697%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-prep-d-b/index.html">PrepDB</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1647691729%2FClasslikes%2F769193423" anchor-label="ReassignClusters" id="-1647691729%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reassign-clusters/index.html"><span>Reassign</span><wbr></wbr><span><span>Clusters</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1647691729%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-reassign-clusters/index.html">ReassignClusters</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="924291404%2FClasslikes%2F769193423" anchor-label="RecomputeClustering" id="924291404%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-recompute-clustering/index.html"><span>Recompute</span><wbr></wbr><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="924291404%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-recompute-clustering/index.html">RecomputeClustering</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1104741125%2FClasslikes%2F769193423" anchor-label="View" id="1104741125%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view/index.html"><span><span>View</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1104741125%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-view/index.html">View</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html
new file mode 100644
index 00000000..49dacb53
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-fields.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="index.html">T</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html
new file mode 100644
index 00000000..2f1dfb71
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-type.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html
new file mode 100644
index 00000000..6adf7803
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html
@@ -0,0 +1,143 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormatBase</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">BlastTabFormatBase</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Base</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">class </span><a href="index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="index.html">T</a><span class="token operator"> : </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt;</span> : <a href="../-output-format-options/index.html">OutputFormatOptions</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-tab-format/index.html">BlastTabFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-json-flat-format/index.html">JsonFlatFormat</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="963990443%2FProperties%2F769193423" anchor-label="formatFields" id="963990443%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr></wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="963990443%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="index.html">T</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html
new file mode 100644
index 00000000..ee487281
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html
new file mode 100644
index 00000000..04c7c680
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-blast-tab-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat/BlastTabFormat/#kotlin.collections.Iterable[org.veupathdb.lib.cli.diamond.opts.output_format.FormatField]/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormat</a><span class="delimiter">/</span><span class="current">BlastTabFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html
new file mode 100644
index 00000000..416cd177
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-fields.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormat</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html
new file mode 100644
index 00000000..8864bd43
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html
@@ -0,0 +1,162 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">BlastTabFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="index.html">BlastTabFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="CONSTRUCTOR">
+        <h2 class="">Constructors</h2>
+        <div class="table"><a data-name="-1888802226%2FConstructors%2F769193423" anchor-label="BlastTabFormat" id="-1888802226%2FConstructors%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="CONSTRUCTOR" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format.html"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1888802226%2FConstructors%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2094857350%2FProperties%2F769193423" anchor-label="formatFields" id="-2094857350%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr></wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2094857350%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/format-type.html"><span>format</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../-blast-tab-format-base/format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../-blast-tab-format-base/to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html
new file mode 100644
index 00000000..475cdca0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>APPROX_PIDENT</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.APPROX_PIDENT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">APPROX_PIDENT</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>APPROX_PIDENT</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">APPROX_PIDENT</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-quality-values/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-quality-values/index.html
new file mode 100644
index 00000000..fadf9e92
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-quality-values/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedQueryQualityValues</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
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+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
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+                            diamondcli
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+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-quality-values/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
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+</div>
+</dokka-template-command>            </div>
+        </div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignedQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AlignedQueryQualityValues</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr></wbr><span>Query</span><wbr></wbr><span>Quality</span><wbr></wbr><span><span>Values</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedQueryQualityValues</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-sequence/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-sequence/index.html
new file mode 100644
index 00000000..460edd2f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-sequence/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedQuerySequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignedQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AlignedQuerySequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedQuerySequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-subject-sequence/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-subject-sequence/index.html
new file mode 100644
index 00000000..af3d94cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-subject-sequence/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedSubjectSequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-subject-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignedSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AlignedSubjectSequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedSubjectSequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-alignment-length/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-alignment-length/index.html
new file mode 100644
index 00000000..cc755e39
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-alignment-length/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignmentLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-alignment-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignmentLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AlignmentLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alignment</span><wbr></wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignmentLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-accesions/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-accesions/index.html
new file mode 100644
index 00000000..a3c3f6a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-accesions/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectAccesions</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-accesions/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectAccesions///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AllSubjectAccesions</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Accesions</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectAccesions</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-g-is/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-g-is/index.html
new file mode 100644
index 00000000..b1f65cd3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-g-is/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectGIs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-g-is/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectGIs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AllSubjectGIs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>GIs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectGIs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-sequence-i-ds/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-sequence-i-ds/index.html
new file mode 100644
index 00000000..ecf9b4a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-sequence-i-ds/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectSequenceIDs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-sequence-i-ds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
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+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectSequenceIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">AllSubjectSequenceIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>IDs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectSequenceIDs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-titles/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-titles/index.html
new file mode 100644
index 00000000..119532af
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-titles/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectTitles</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-titles/index.html&quot;}"><div class="versions-dropdown">
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+</dokka-template-command>            </div>
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+        <div class="filter-section" id="filter-section">
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+</nav>
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+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectTitles///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
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+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectTitles</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-bit-score/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-bit-score/index.html
new file mode 100644
index 00000000..db8b2621
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-bit-score/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
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+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">BitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
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+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-blast-traceback-operations/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-blast-traceback-operations/index.html
new file mode 100644
index 00000000..b7aff94a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-blast-traceback-operations/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTracebackOperations</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-blast-traceback-operations/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.BlastTracebackOperations///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">BlastTracebackOperations</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Traceback</span><wbr></wbr><span><span>Operations</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastTracebackOperations</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-c-i-g-a-r/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-c-i-g-a-r/index.html
new file mode 100644
index 00000000..07fc06f0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-c-i-g-a-r/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CIGAR</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-c-i-g-a-r/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.CIGAR///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">CIGAR</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>CIGAR</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CIGAR</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-json.html
new file mode 100644
index 00000000..4c09f9e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">FormatField</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-string.html
new file mode 100644
index 00000000..ecbfa693
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">FormatField</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/index.html
new file mode 100644
index 00000000..23234ce0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1436565756%2FFunctions%2F769193423" anchor-label="fromJson" id="-1436565756%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1436565756%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">FormatField</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1026252056%2FFunctions%2F769193423" anchor-label="fromString" id="1026252056%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1026252056%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">FormatField</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-corrected-bit-score/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-corrected-bit-score/index.html
new file mode 100644
index 00000000..1e1b9800
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-corrected-bit-score/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CorrectedBitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-corrected-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.CorrectedBitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">CorrectedBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Corrected</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CorrectedBitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-e-x-t_-c-o-u-n-t/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-e-x-t_-c-o-u-n-t/index.html
new file mode 100644
index 00000000..c08389f9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-e-x-t_-c-o-u-n-t/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EXT_COUNT</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-e-x-t_-c-o-u-n-t/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.EXT_COUNT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">EXT_COUNT</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>EXT_COUNT</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EXT_COUNT</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-expect-value/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-expect-value/index.html
new file mode 100644
index 00000000..1d0464dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-expect-value/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExpectValue</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-expect-value/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.ExpectValue///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">ExpectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Expect</span><wbr></wbr><span><span>Value</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ExpectValue</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-frames/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-frames/index.html
new file mode 100644
index 00000000..958e0024
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-frames/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Frames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-frames/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Frames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Frames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Frames</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Frames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-quality-values/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-quality-values/index.html
new file mode 100644
index 00000000..dbb07bc3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-quality-values/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQueryQualityValues</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-quality-values/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">FullQueryQualityValues</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span>Quality</span><wbr></wbr><span><span>Values</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQueryQualityValues</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence-of-mate/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence-of-mate/index.html
new file mode 100644
index 00000000..654ffb93
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence-of-mate/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQuerySequenceOfMate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence-of-mate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullQuerySequenceOfMate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">FullQuerySequenceOfMate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span>Of</span><wbr></wbr><span><span>Mate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQuerySequenceOfMate</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence/index.html
new file mode 100644
index 00000000..d07d53a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQuerySequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">FullQuerySequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQuerySequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-subject-sequence/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-subject-sequence/index.html
new file mode 100644
index 00000000..ad5d643e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-subject-sequence/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullSubjectSequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-subject-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">FullSubjectSequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullSubjectSequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-gap-openings/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-gap-openings/index.html
new file mode 100644
index 00000000..65db4863
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-gap-openings/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GapOpenings</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-gap-openings/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.GapOpenings///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">GapOpenings</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Gap</span><wbr></wbr><span><span>Openings</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GapOpenings</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-h-s-p-num/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-h-s-p-num/index.html
new file mode 100644
index 00000000..4973f89d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-h-s-p-num/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HSPNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-h-s-p-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.HSPNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">HSPNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>HSPNum</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HSPNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-identical-matches/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-identical-matches/index.html
new file mode 100644
index 00000000..c800c96c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-identical-matches/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IdenticalMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-identical-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.IdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">IdenticalMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Identical</span><wbr></wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">IdenticalMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-mismatches/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-mismatches/index.html
new file mode 100644
index 00000000..625fcec4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-mismatches/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mismatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-mismatches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Mismatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Mismatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mismatches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Mismatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-e-g_-e-v-a-l-u-e/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-e-g_-e-v-a-l-u-e/index.html
new file mode 100644
index 00000000..8c9f32cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-e-g_-e-v-a-l-u-e/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NEG_EVALUE</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-e-g_-e-v-a-l-u-e/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NEG_EVALUE///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">NEG_EVALUE</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>NEG_EVALUE</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NEG_EVALUE</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html
new file mode 100644
index 00000000..981a87b8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NW_SEMIGLOBAL</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NW_SEMIGLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">NW_SEMIGLOBAL</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>NW_SEMIGLOBAL</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NW_SEMIGLOBAL</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
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+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-global/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-global/index.html
new file mode 100644
index 00000000..227560c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-global/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NormalizedBitScoreGlobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NormalizedBitScoreGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">NormalizedBitScoreGlobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Normalized</span><wbr></wbr><span>Bit</span><wbr></wbr><span>Score</span><wbr></wbr><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NormalizedBitScoreGlobal</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-semiglobal/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-semiglobal/index.html
new file mode 100644
index 00000000..bd94c3e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-semiglobal/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NormalizedBitScoreSemiglobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-semiglobal/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NormalizedBitScoreSemiglobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">NormalizedBitScoreSemiglobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Normalized</span><wbr></wbr><span>Bit</span><wbr></wbr><span>Score</span><wbr></wbr><span><span>Semiglobal</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NormalizedBitScoreSemiglobal</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html
new file mode 100644
index 00000000..b720f636
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PIDENT_GLOBAL</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PIDENT_GLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">PIDENT_GLOBAL</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PIDENT_GLOBAL</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PIDENT_GLOBAL</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-identical-matches/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-identical-matches/index.html
new file mode 100644
index 00000000..c2491b67
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-identical-matches/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PercentIdenticalMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-identical-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PercentIdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">PercentIdenticalMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Percent</span><wbr></wbr><span>Identical</span><wbr></wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PercentIdenticalMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-positive-scoring-matches/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-positive-scoring-matches/index.html
new file mode 100644
index 00000000..bc1f6fa2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-positive-scoring-matches/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PercentPositiveScoringMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-positive-scoring-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PercentPositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">PercentPositiveScoringMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Percent</span><wbr></wbr><span>Positive</span><wbr></wbr><span>Scoring</span><wbr></wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PercentPositiveScoringMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-positive-scoring-matches/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-positive-scoring-matches/index.html
new file mode 100644
index 00000000..aec7ad72
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-positive-scoring-matches/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PositiveScoringMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-positive-scoring-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">PositiveScoringMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Positive</span><wbr></wbr><span>Scoring</span><wbr></wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PositiveScoringMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
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+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
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+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion-version/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion-version/index.html
new file mode 100644
index 00000000..7e91eaf5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion-version/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAccesionVersion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryAccesionVersion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Accesion</span><wbr></wbr><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAccesionVersion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
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+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion/index.html
new file mode 100644
index 00000000..be5e0d55
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAccesion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
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+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryAccesion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Accesion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAccesion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-end/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-end/index.html
new file mode 100644
index 00000000..636998aa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-end/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAlignmentEnd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-end/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryAlignmentEnd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>End</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAlignmentEnd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-start/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-start/index.html
new file mode 100644
index 00000000..9b7bdc04
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-start/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAlignmentStart</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-start/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryAlignmentStart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Start</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAlignmentStart</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-h-s-p/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-h-s-p/index.html
new file mode 100644
index 00000000..716b4ecc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-h-s-p/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerHSP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-h-s-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerHSP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>HSP</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerHSP</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-subject/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-subject/index.html
new file mode 100644
index 00000000..c10d84a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-subject/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerSubject</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-subject/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>Subject</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerSubject</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-unique-subject/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-unique-subject/index.html
new file mode 100644
index 00000000..d94aa2ee
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-unique-subject/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerUniqueSubject</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-unique-subject/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerUniqueSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerUniqueSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span>Unique</span><wbr></wbr><span><span>Subject</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerUniqueSubject</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-frame/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-frame/index.html
new file mode 100644
index 00000000..777d4ed0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-frame/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryFrame</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-frame/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryFrame</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Frame</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryFrame</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-g-i/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-g-i/index.html
new file mode 100644
index 00000000..b710c3a2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-g-i/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryGI</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
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+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-g-i/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryGI</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>GI</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryGI</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-num/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-num/index.html
new file mode 100644
index 00000000..b61763e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-num/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Num</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-gapped/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-gapped/index.html
new file mode 100644
index 00000000..16bf1c58
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-gapped/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceGapped</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-gapped/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceGapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Gapped</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceGapped</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-i-d/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-i-d/index.html
new file mode 100644
index 00000000..ca72f4a8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-i-d/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-length/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-length/index.html
new file mode 100644
index 00000000..3a28b311
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-length/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-translated/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-translated/index.html
new file mode 100644
index 00000000..c745d333
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-translated/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceTranslated</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-translated/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceTranslated///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceTranslated</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Translated</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceTranslated</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-strand/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-strand/index.html
new file mode 100644
index 00000000..8c32db89
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-strand/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryStrand</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryStrand</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-title/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-title/index.html
new file mode 100644
index 00000000..a3cda130
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-title/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryTitle</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-title/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">QueryTitle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Title</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryTitle</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-raw-score/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-raw-score/index.html
new file mode 100644
index 00000000..866cae89
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-raw-score/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RawScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-raw-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.RawScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">RawScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Raw</span><wbr></wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RawScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reduced-match-bit-string/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reduced-match-bit-string/index.html
new file mode 100644
index 00000000..41be3faf
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reduced-match-bit-string/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReducedMatchBitString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reduced-match-bit-string/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.ReducedMatchBitString///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">ReducedMatchBitString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reduced</span><wbr></wbr><span>Match</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>String</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ReducedMatchBitString</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved1/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved1/index.html
new file mode 100644
index 00000000..c47ceee3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved1/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reserved1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Reserved1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Reserved1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reserved1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Reserved1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved2/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved2/index.html
new file mode 100644
index 00000000..9c62e63a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved2/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reserved2</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved2/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Reserved2///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Reserved2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reserved2</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Reserved2</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-s-w-diff/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-s-w-diff/index.html
new file mode 100644
index 00000000..1d521ef2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-s-w-diff/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SWDiff</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-s-w-diff/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SWDiff///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SWDiff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>SWDiff</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SWDiff</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion-version/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion-version/index.html
new file mode 100644
index 00000000..6a96b2fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion-version/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAccesionVersion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectAccesionVersion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Accesion</span><wbr></wbr><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAccesionVersion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion/index.html
new file mode 100644
index 00000000..1673b0b4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAccesion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectAccesion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Accesion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAccesion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-end/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-end/index.html
new file mode 100644
index 00000000..fc70ddb8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-end/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAlignmentEnd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-end/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectAlignmentEnd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>End</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAlignmentEnd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-start/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-start/index.html
new file mode 100644
index 00000000..09b83133
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-start/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAlignmentStart</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    }
+    </script>
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+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
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+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-start/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectAlignmentStart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Start</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAlignmentStart</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-blast-names/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-blast-names/index.html
new file mode 100644
index 00000000..0686bd77
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-blast-names/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectBlastNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-blast-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectBlastNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectBlastNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Blast</span><wbr></wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectBlastNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-common-names/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-common-names/index.html
new file mode 100644
index 00000000..f85b6e1f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-common-names/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectCommonNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-common-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectCommonNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectCommonNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Common</span><wbr></wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectCommonNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-coverage-per-h-s-p/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-coverage-per-h-s-p/index.html
new file mode 100644
index 00000000..76fdd5c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-coverage-per-h-s-p/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectCoveragePerHSP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-coverage-per-h-s-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectCoveragePerHSP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>HSP</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectCoveragePerHSP</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-frame/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-frame/index.html
new file mode 100644
index 00000000..49a8ba6d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-frame/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectFrame</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-frame/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectFrame</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Frame</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectFrame</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-g-i/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-g-i/index.html
new file mode 100644
index 00000000..3f8d8d68
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-g-i/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectGI</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-g-i/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectGI</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>GI</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectGI</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-kingdoms/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-kingdoms/index.html
new file mode 100644
index 00000000..8daff518
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-kingdoms/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectKingdoms</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-kingdoms/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectKingdoms</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Kingdoms</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectKingdoms</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-lineages/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-lineages/index.html
new file mode 100644
index 00000000..4d11e750
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-lineages/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectLineages</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-lineages/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectLineages///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectLineages</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Lineages</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectLineages</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-num/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-num/index.html
new file mode 100644
index 00000000..e01e62f0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-num/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Num</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
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+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-phylums/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-phylums/index.html
new file mode 100644
index 00000000..4d7a9e7a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-phylums/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectPhylums</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-phylums/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectPhylums///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectPhylums</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Phylums</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectPhylums</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-scientific-names/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-scientific-names/index.html
new file mode 100644
index 00000000..8181897f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-scientific-names/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectScientificNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-scientific-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectScientificNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectScientificNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Scientific</span><wbr></wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectScientificNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-gapped/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-gapped/index.html
new file mode 100644
index 00000000..a049e3de
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-gapped/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceGapped</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-gapped/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceGapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Gapped</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceGapped</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-i-d/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-i-d/index.html
new file mode 100644
index 00000000..ca84a835
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-i-d/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-length/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-length/index.html
new file mode 100644
index 00000000..ea8c340d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-length/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-strand/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-strand/index.html
new file mode 100644
index 00000000..11cc8eb1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-strand/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectStrand</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectStrand</a></div></div></div></div>
+  </div>
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+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
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+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-super-kingdoms/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-super-kingdoms/index.html
new file mode 100644
index 00000000..bbdb3917
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-super-kingdoms/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSuperKingdoms</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
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+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-super-kingdoms/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSuperKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectSuperKingdoms</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Super</span><wbr></wbr><span><span>Kingdoms</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSuperKingdoms</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-taxonomy-i-ds/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-taxonomy-i-ds/index.html
new file mode 100644
index 00000000..12c2584c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-taxonomy-i-ds/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectTaxonomyIDs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+        const savedDarkMode = JSON.parse(storage)
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+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
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+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-taxonomy-i-ds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectTaxonomyIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectTaxonomyIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span>Taxonomy</span><wbr></wbr><span><span>IDs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectTaxonomyIDs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-title/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-title/index.html
new file mode 100644
index 00000000..2f3dd0d8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-title/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectTitle</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-title/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">SubjectTitle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr></wbr><span><span>Title</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectTitle</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-time/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-time/index.html
new file mode 100644
index 00000000..0c70789d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-time/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Time</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-time/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Time///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">Time</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Time</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Time</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-total-gaps/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-total-gaps/index.html
new file mode 100644
index 00000000..99b091a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-total-gaps/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TotalGaps</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-total-gaps/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.TotalGaps///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">TotalGaps</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Total</span><wbr></wbr><span><span>Gaps</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">TotalGaps</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-ungapped-score/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-ungapped-score/index.html
new file mode 100644
index 00000000..bb72084f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-ungapped-score/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UngappedScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-ungapped-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.UngappedScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">FormatField</a><span class="delimiter">/</span><span class="current">UngappedScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ungapped</span><wbr></wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">UngappedScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/entries.html
new file mode 100644
index 00000000..2f224ec2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">FormatField</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html
new file mode 100644
index 00000000..f4db0ad0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html
@@ -0,0 +1,1396 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FormatField</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
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+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
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+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
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+        <div class="filter-section" id="filter-section">
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+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">FormatField</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Format</span><wbr></wbr><span><span>Field</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">FormatField</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">FormatField</a><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1626329787%2FClasslikes%2F769193423" anchor-label="QuerySequenceID" id="-1626329787%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-i-d/index.html">QuerySequenceID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1626329787%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-i-d/index.html">QuerySequenceID</a></div></div></div></div>
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+          </div>
+<a data-name="191101931%2FClasslikes%2F769193423" anchor-label="QueryGI" id="191101931%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                  <div><a href="-query-g-i/index.html">QueryGI</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="191101931%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-g-i/index.html">QueryGI</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1194492386%2FClasslikes%2F769193423" anchor-label="QueryAccesion" id="1194492386%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-accesion/index.html">QueryAccesion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1194492386%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-accesion/index.html">QueryAccesion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1676897342%2FClasslikes%2F769193423" anchor-label="QueryAccesionVersion" id="1676897342%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-accesion-version/index.html">QueryAccesionVersion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1676897342%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-accesion-version/index.html">QueryAccesionVersion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078097136%2FClasslikes%2F769193423" anchor-label="QuerySequenceLength" id="2078097136%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-length/index.html">QuerySequenceLength</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078097136%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-length/index.html">QuerySequenceLength</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-413536663%2FClasslikes%2F769193423" anchor-label="SubjectSequenceID" id="-413536663%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-sequence-i-d/index.html">SubjectSequenceID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-413536663%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-sequence-i-d/index.html">SubjectSequenceID</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="943339533%2FClasslikes%2F769193423" anchor-label="AllSubjectSequenceIDs" id="943339533%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-sequence-i-ds/index.html">AllSubjectSequenceIDs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="943339533%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-sequence-i-ds/index.html">AllSubjectSequenceIDs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1526521585%2FClasslikes%2F769193423" anchor-label="SubjectGI" id="-1526521585%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-g-i/index.html">SubjectGI</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1526521585%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-g-i/index.html">SubjectGI</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1352923865%2FClasslikes%2F769193423" anchor-label="AllSubjectGIs" id="-1352923865%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-g-is/index.html">AllSubjectGIs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1352923865%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-g-is/index.html">AllSubjectGIs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1534968826%2FClasslikes%2F769193423" anchor-label="SubjectAccesion" id="-1534968826%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-accesion/index.html">SubjectAccesion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1534968826%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-accesion/index.html">SubjectAccesion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1980285338%2FClasslikes%2F769193423" anchor-label="SubjectAccesionVersion" id="1980285338%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-accesion-version/index.html">SubjectAccesionVersion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1980285338%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-accesion-version/index.html">SubjectAccesionVersion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-748011312%2FClasslikes%2F769193423" anchor-label="AllSubjectAccesions" id="-748011312%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-accesions/index.html">AllSubjectAccesions</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-748011312%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-accesions/index.html">AllSubjectAccesions</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="425315860%2FClasslikes%2F769193423" anchor-label="SubjectSequenceLength" id="425315860%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
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+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="425315860%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-sequence-length/index.html">SubjectSequenceLength</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                  <div><a href="-query-alignment-start/index.html">QueryAlignmentStart</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2022951720%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-alignment-start/index.html">QueryAlignmentStart</a></div></div></div></div>
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+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+                <div class="title">
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-alignment-end/index.html">SubjectAlignmentEnd</a></div></div></div></div>
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+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-query-sequence/index.html">AlignedQuerySequence</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligned-subject-sequence/index.html">AlignedSubjectSequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="734651920%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-subject-sequence/index.html">AlignedSubjectSequence</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-expect-value/index.html">ExpectValue</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-expect-value/index.html">ExpectValue</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bit-score/index.html">BitScore</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-raw-score/index.html">RawScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1184287535%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-raw-score/index.html">RawScore</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alignment-length/index.html">AlignmentLength</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-alignment-length/index.html">AlignmentLength</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-percent-identical-matches/index.html">PercentIdenticalMatches</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="715383204%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-percent-identical-matches/index.html">PercentIdenticalMatches</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-identical-matches/index.html">IdenticalMatches</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2139006533%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-identical-matches/index.html">IdenticalMatches</a></div></div></div></div>
+                </div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mismatches/index.html">Mismatches</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="425802819%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mismatches/index.html">Mismatches</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-positive-scoring-matches/index.html">PositiveScoringMatches</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2110932284%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-positive-scoring-matches/index.html">PositiveScoringMatches</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-gap-openings/index.html">GapOpenings</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437376878%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-gap-openings/index.html">GapOpenings</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-total-gaps/index.html">TotalGaps</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1858902146%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-total-gaps/index.html">TotalGaps</a></div></div></div></div>
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+<a data-name="782938851%2FClasslikes%2F769193423" anchor-label="PercentPositiveScoringMatches" id="782938851%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-percent-positive-scoring-matches/index.html">PercentPositiveScoringMatches</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="782938851%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-percent-positive-scoring-matches/index.html">PercentPositiveScoringMatches</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
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+              <div class=""><span class="inline-flex">
+                  <div><a href="-frames/index.html">Frames</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1024094701%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-frames/index.html">Frames</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-frame/index.html">QueryFrame</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1871131916%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-frame/index.html">QueryFrame</a></div></div></div></div>
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+<a data-name="-1905635992%2FClasslikes%2F769193423" anchor-label="SubjectFrame" id="-1905635992%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-frame/index.html">SubjectFrame</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1905635992%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-frame/index.html">SubjectFrame</a></div></div></div></div>
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+<a data-name="1174427815%2FClasslikes%2F769193423" anchor-label="BlastTracebackOperations" id="1174427815%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-traceback-operations/index.html">BlastTracebackOperations</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1174427815%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+                <div class="title">
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-common-names/index.html">SubjectCommonNames</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-blast-names/index.html">SubjectBlastNames</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                  <div><a href="-subject-super-kingdoms/index.html">SubjectSuperKingdoms</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-super-kingdoms/index.html">SubjectSuperKingdoms</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-title/index.html">SubjectTitle</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-titles/index.html">AllSubjectTitles</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2135174861%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-titles/index.html">AllSubjectTitles</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-strand/index.html">SubjectStrand</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-strand/index.html">SubjectStrand</a></div></div></div></div>
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+<a data-name="-985057344%2FClasslikes%2F769193423" anchor-label="QueryCoveragePerSubject" id="-985057344%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-coverage-per-subject/index.html">QueryCoveragePerSubject</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-985057344%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-subject/index.html">QueryCoveragePerSubject</a></div></div></div></div>
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+<a data-name="-611715687%2FClasslikes%2F769193423" anchor-label="QueryCoveragePerHSP" id="-611715687%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-coverage-per-h-s-p/index.html">QueryCoveragePerHSP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611715687%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-h-s-p/index.html">QueryCoveragePerHSP</a></div></div></div></div>
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+<a data-name="849577583%2FClasslikes%2F769193423" anchor-label="QueryCoveragePerUniqueSubject" id="849577583%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-coverage-per-unique-subject/index.html">QueryCoveragePerUniqueSubject</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="849577583%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-unique-subject/index.html">QueryCoveragePerUniqueSubject</a></div></div></div></div>
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+<a data-name="1337081015%2FClasslikes%2F769193423" anchor-label="QueryTitle" id="1337081015%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-title/index.html">QueryTitle</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1337081015%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-title/index.html">QueryTitle</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-s-w-diff/index.html">SWDiff</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="600415856%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-s-w-diff/index.html">SWDiff</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-time/index.html">Time</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1260151148%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-time/index.html">Time</a></div></div></div></div>
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+<a data-name="1206976575%2FClasslikes%2F769193423" anchor-label="FullSubjectSequence" id="1206976575%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-subject-sequence/index.html">FullSubjectSequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1206976575%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-subject-sequence/index.html">FullSubjectSequence</a></div></div></div></div>
+                </div>
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+          </div>
+<a data-name="336877662%2FClasslikes%2F769193423" anchor-label="AlignedQueryQualityValues" id="336877662%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligned-query-quality-values/index.html">AlignedQueryQualityValues</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="336877662%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-query-quality-values/index.html">AlignedQueryQualityValues</a></div></div></div></div>
+                </div>
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+<a data-name="1931218981%2FClasslikes%2F769193423" anchor-label="QueryNum" id="1931218981%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-num/index.html">QueryNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1931218981%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-num/index.html">QueryNum</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-num/index.html">SubjectNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="224497537%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-num/index.html">SubjectNum</a></div></div></div></div>
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+<a data-name="2030470333%2FClasslikes%2F769193423" anchor-label="SubjectCoveragePerHSP" id="2030470333%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-coverage-per-h-s-p/index.html">SubjectCoveragePerHSP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2030470333%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-coverage-per-h-s-p/index.html">SubjectCoveragePerHSP</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                  <div><a href="-query-sequence-gapped/index.html">QuerySequenceGapped</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
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+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-strand/index.html">QueryStrand</a></div></div></div></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-c-i-g-a-r/index.html">CIGAR</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-kingdoms/index.html">SubjectKingdoms</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-phylums/index.html">SubjectPhylums</a></div>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-phylums/index.html">SubjectPhylums</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ungapped-score/index.html">UngappedScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="648362849%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ungapped-score/index.html">UngappedScore</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-query-sequence-of-mate/index.html">FullQuerySequenceOfMate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-273312329%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-query-sequence-of-mate/index.html">FullQuerySequenceOfMate</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-translated/index.html">QuerySequenceTranslated</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1544392160%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-translated/index.html">QuerySequenceTranslated</a></div></div></div></div>
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+<a data-name="-1054097576%2FClasslikes%2F769193423" anchor-label="ReducedMatchBitString" id="-1054097576%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reduced-match-bit-string/index.html">ReducedMatchBitString</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1054097576%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reduced-match-bit-string/index.html">ReducedMatchBitString</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-normalized-bit-score-semiglobal/index.html">NormalizedBitScoreSemiglobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="253494804%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-normalized-bit-score-semiglobal/index.html">NormalizedBitScoreSemiglobal</a></div></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-h-s-p-num/index.html">HSPNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="307341448%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-h-s-p-num/index.html">HSPNum</a></div></div></div></div>
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+<a data-name="-1174098650%2FClasslikes%2F769193423" anchor-label="NormalizedBitScoreGlobal" id="-1174098650%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-normalized-bit-score-global/index.html">NormalizedBitScoreGlobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1174098650%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-normalized-bit-score-global/index.html">NormalizedBitScoreGlobal</a></div></div></div></div>
+                </div>
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+<a data-name="-1328357917%2FClasslikes%2F769193423" anchor-label="PIDENT_GLOBAL" id="-1328357917%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-i-d-e-n-t_-g-l-o-b-a-l/index.html">PIDENT_GLOBAL</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1328357917%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-i-d-e-n-t_-g-l-o-b-a-l/index.html">PIDENT_GLOBAL</a></div></div></div></div>
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+<a data-name="-704362478%2FClasslikes%2F769193423" anchor-label="EXT_COUNT" id="-704362478%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-e-x-t_-c-o-u-n-t/index.html">EXT_COUNT</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-704362478%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-e-x-t_-c-o-u-n-t/index.html">EXT_COUNT</a></div></div></div></div>
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+<a data-name="1921284776%2FClasslikes%2F769193423" anchor-label="NW_SEMIGLOBAL" id="1921284776%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-n-w_-s-e-m-i-g-l-o-b-a-l/index.html">NW_SEMIGLOBAL</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1921284776%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-n-w_-s-e-m-i-g-l-o-b-a-l/index.html">NW_SEMIGLOBAL</a></div></div></div></div>
+                </div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-a-p-p-r-o-x_-p-i-d-e-n-t/index.html">APPROX_PIDENT</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="941300902%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-a-p-p-r-o-x_-p-i-d-e-n-t/index.html">APPROX_PIDENT</a></div></div></div></div>
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+              </div>
+            </div>
+          </div>
+<a data-name="-917329873%2FClasslikes%2F769193423" anchor-label="CorrectedBitScore" id="-917329873%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-corrected-bit-score/index.html">CorrectedBitScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-917329873%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-corrected-bit-score/index.html">CorrectedBitScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1172143810%2FClasslikes%2F769193423" anchor-label="NEG_EVALUE" id="1172143810%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-n-e-g_-e-v-a-l-u-e/index.html">NEG_EVALUE</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1172143810%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-n-e-g_-e-v-a-l-u-e/index.html">NEG_EVALUE</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1676277046%2FClasslikes%2F769193423" anchor-label="Reserved1" id="-1676277046%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reserved1/index.html">Reserved1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1676277046%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reserved1/index.html">Reserved1</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="253953803%2FClasslikes%2F769193423" anchor-label="Reserved2" id="253953803%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reserved2/index.html">Reserved2</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="253953803%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reserved2/index.html">Reserved2</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1842121813%2FClasslikes%2F769193423" anchor-label="SubjectLineages" id="1842121813%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-lineages/index.html">SubjectLineages</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1842121813%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-lineages/index.html">SubjectLineages</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-609359464%2FClasslikes%2F769193423" anchor-label="Companion" id="-609359464%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-609359464%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-995759423%2FProperties%2F769193423" anchor-label="entries" id="-995759423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-995759423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">FormatField</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1720431864%2FProperties%2F769193423" anchor-label="jsonValue" id="-1720431864%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1720431864%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="38474194%2FProperties%2F769193423" anchor-label="key" id="38474194%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="38474194%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1726761917%2FFunctions%2F769193423" anchor-label="toString" id="1726761917%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1726761917%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1345899397%2FFunctions%2F769193423" anchor-label="valueOf" id="-1345899397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1345899397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">FormatField</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2047695673%2FFunctions%2F769193423" anchor-label="values" id="-2047695673%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2047695673%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">FormatField</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/json-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/json-value.html
new file mode 100644
index 00000000..96c2c883
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/json-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>jsonValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/json-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="json-value.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/jsonValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">jsonValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>json</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/key.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/key.html
new file mode 100644
index 00000000..b8335728
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/key.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/key.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="key.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/key/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">key</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/to-string.html
new file mode 100644
index 00000000..de5ecf81
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/value-of.html
new file mode 100644
index 00000000..6890808b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">FormatField</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/values.html
new file mode 100644
index 00000000..8bd5083e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">FormatField</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">FormatField</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html
new file mode 100644
index 00000000..8cf502a8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlatFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-json-flat-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat/JsonFlatFormat/#kotlin.collections.Iterable[org.veupathdb.lib.cli.diamond.opts.output_format.FormatField]/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">JsonFlatFormat</a><span class="delimiter">/</span><span class="current">JsonFlatFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr></wbr><span>Flat</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html
new file mode 100644
index 00000000..4f07b675
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-fields.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">JsonFlatFormat</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html
new file mode 100644
index 00000000..1459612c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html
@@ -0,0 +1,162 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlatFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">JsonFlatFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr></wbr><span>Flat</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="index.html">JsonFlatFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="CONSTRUCTOR">
+        <h2 class="">Constructors</h2>
+        <div class="table"><a data-name="-1384455730%2FConstructors%2F769193423" anchor-label="JsonFlatFormat" id="-1384455730%2FConstructors%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="CONSTRUCTOR" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-json-flat-format.html"><span>Json</span><wbr></wbr><span>Flat</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1384455730%2FConstructors%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2069567618%2FProperties%2F769193423" anchor-label="formatFields" id="-2069567618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr></wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2069567618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-format-field/index.html">FormatField</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/format-type.html"><span>format</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../-blast-tab-format-base/format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../-blast-tab-format-base/to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options.html
new file mode 100644
index 00000000..959d144b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>OutputFormatOptions</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-output-format-options.html">v0.2.0</a><a href="../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format//OutputFormatOptions/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><a href="index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">OutputFormatOptions</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Options</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind.node/ObjectNode///PointingToDeclaration/">ObjectNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html
new file mode 100644
index 00000000..37fa90c8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-type.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptions</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html
new file mode 100644
index 00000000..a405341c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>OutputFormatOptions</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">OutputFormatOptions</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Options</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">OutputFormatOptions</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-simple-output-format/index.html">SimpleOutputFormat</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1497882277%2FProperties%2F769193423" anchor-label="formatType" id="-1497882277%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1497882277%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html
new file mode 100644
index 00000000..05a97131
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Bin1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+        if(savedDarkMode === true) {
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+    }
+    </script>
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+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
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+<body>
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+    <div class="navigation--inner">
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+</nav>
+        <div id="container">
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Bin1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Bin1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Bin1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Bin1</a></div></div></div></div>
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+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html
new file mode 100644
index 00000000..18f2bb21
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTab</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
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+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>Tab</span></span></h1>
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+        <h2 class="">Properties</h2>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
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+              </div>
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+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
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+      </div>
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+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html
new file mode 100644
index 00000000..2d32ef8a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Clustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
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+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Clustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Clustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Clustering</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-json.html
new file mode 100644
index 00000000..eff86f48
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string-or-null.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string-or-null.html
new file mode 100644
index 00000000..d58f84f7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string-or-null.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromStringOrNull</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string-or-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string-or-null.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Companion/fromStringOrNull/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromStringOrNull</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a><span class="token operator">?</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string.html
new file mode 100644
index 00000000..b4508968
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/index.html
new file mode 100644
index 00000000..5b6b97b6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1549055039%2FFunctions%2F769193423" anchor-label="fromJson" id="1549055039%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1549055039%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1992332115%2FFunctions%2F769193423" anchor-label="fromString" id="1992332115%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1992332115%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="787696893%2FFunctions%2F769193423" anchor-label="fromStringOrNull" id="787696893%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string-or-null.html"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="787696893%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">OutputFormat</a><span class="token operator">?</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html
new file mode 100644
index 00000000..add977ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondAlignmentArchive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    <div class="navigation-controls">
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+</nav>
+        <div id="container">
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+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.DiamondAlignmentArchive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">DiamondAlignmentArchive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Archive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DiamondAlignmentArchive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html
new file mode 100644
index 00000000..5de782f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Edge</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
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+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Edge///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Edge</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Edge</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Edge</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
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+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html
new file mode 100644
index 00000000..690149e0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
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+<body>
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.JsonFlat///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">JsonFlat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr></wbr><span><span>Flat</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">JsonFlat</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html
new file mode 100644
index 00000000..38c21e75
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Null</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
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+</head>
+<body>
+    <div class="root">
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+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Null///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Null</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Null</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Null</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
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+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
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+              </div>
+            </div>
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+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
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+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
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+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
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+      </div>
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise-mapping-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise-mapping-format/index.html
new file mode 100644
index 00000000..f19dc036
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise-mapping-format/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PairwiseMappingFormat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
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+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise-mapping-format/index.html&quot;}"><div class="versions-dropdown">
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+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">PairwiseMappingFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Pairwise</span><wbr></wbr><span>Mapping</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PairwiseMappingFormat</a></div></div></div></div>
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+  <div class="tabbedcontent">
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+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
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+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html
new file mode 100644
index 00000000..d251b145
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Pairwise</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
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+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+</nav>
+        <div id="container">
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+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Pairwise</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Pairwise</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Pairwise</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
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+                </div>
+              </div>
+            </div>
+          </div>
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+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
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+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
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+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
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diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-sequence-alignment-map/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-sequence-alignment-map/index.html
new file mode 100644
index 00000000..cd141bc4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-sequence-alignment-map/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SequenceAlignmentMap</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
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+        if (osDarkSchemePreferred === true) {
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+    </script>
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+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">SequenceAlignmentMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Sequence</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Map</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SequenceAlignmentMap</a></div></div></div></div>
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+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
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+      </div>
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+</div>
+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
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+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html
new file mode 100644
index 00000000..341aeeab
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Taxon</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
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+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+  <div class="versions-dropdown-button">v0.2.0</div>
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+</div>
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+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Taxon</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Taxon</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Taxon</a></div></div></div></div>
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+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
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+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html
new file mode 100644
index 00000000..e59e2153
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html
@@ -0,0 +1,248 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>XML</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
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+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
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+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    </div>
+    <div class="navigation-controls">
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.XML///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">XML</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>XML</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">XML</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html
new file mode 100644
index 00000000..03dd1343
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>acceptsFormatParams</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
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+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="accepts-format-params.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/acceptsFormatParams/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">acceptsFormatParams</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/cli-value.html
new file mode 100644
index 00000000..40d85bbd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html
new file mode 100644
index 00000000..bf53e600
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html
new file mode 100644
index 00000000..d0a8f045
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hasIntForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="has-int-form.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/hasIntForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">hasIntForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html
new file mode 100644
index 00000000..f67e6db5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hasStringForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
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+</div>
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+        <div class="filter-section" id="filter-section">
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+  <div class="cover ">
+    <h1 class="cover"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
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diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html
new file mode 100644
index 00000000..e61f74d3
--- /dev/null
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+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html">v0.1.0</a></div>
+</div>
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+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">OutputFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">OutputFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
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+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
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+<a data-name="-374260148%2FClasslikes%2F769193423" anchor-label="Bin1" id="-374260148%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
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+                </div>
+              </div>
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+          </div>
+<a data-name="280345322%2FClasslikes%2F769193423" anchor-label="Clustering" id="280345322%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
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+                  <div><a href="-clustering/index.html">Clustering</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="280345322%2FClasslikes%2F769193423"></span>
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
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+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-edge/index.html">Edge</a></div></div></div></div>
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+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1571397421%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="accepts-format-params.html"><span>accepts</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1449847043%2FProperties%2F769193423" anchor-label="cliValue" id="-1449847043%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1449847043%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1340667068%2FProperties%2F769193423" anchor-label="entries" id="1340667068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1340667068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="has-int-form.html"><span>has</span><wbr></wbr><span>Int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="has-string-form.html"><span>has</span><wbr></wbr><span>String</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="int-form.html"><span>int</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1612497475%2FProperties%2F769193423" anchor-label="jsonValue" id="1612497475%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1612497475%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="string-form.html"><span>string</span><wbr></wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="166689376%2FFunctions%2F769193423" anchor-label="valueOf" id="166689376%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="166689376%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">OutputFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1418137748%2FFunctions%2F769193423" anchor-label="values" id="-1418137748%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1418137748%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html
new file mode 100644
index 00000000..43cec378
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>intForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="int-form.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/intForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">intForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>int</span><wbr></wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/json-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/json-value.html
new file mode 100644
index 00000000..06bbbf21
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/json-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>jsonValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/json-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="json-value.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/jsonValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">jsonValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>json</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html
new file mode 100644
index 00000000..e317c697
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>stringForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="string-form.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/stringForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">stringForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>string</span><wbr></wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html
new file mode 100644
index 00000000..a15f4d3b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html
new file mode 100644
index 00000000..d4fd76d7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">OutputFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html
new file mode 100644
index 00000000..713b7d28
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html
new file mode 100644
index 00000000..a411eaee
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Bin1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-bin1.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Bin1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Bin1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Bin1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-bin1.html">Bin1</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html
new file mode 100644
index 00000000..c0c56092
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Clustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-clustering.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Clustering/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Clustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Clustering</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-clustering.html">Clustering</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html
new file mode 100644
index 00000000..0904b29f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DAA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-d-a-a.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/DAA/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">DAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DAA</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-d-a-a.html">DAA</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-diamond-alignment-archive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-diamond-alignment-archive.html
new file mode 100644
index 00000000..1de835f9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-diamond-alignment-archive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondAlignmentArchive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-diamond-alignment-archive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-diamond-alignment-archive.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/DiamondAlignmentArchive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">DiamondAlignmentArchive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Archive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-diamond-alignment-archive.html">DiamondAlignmentArchive</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html
new file mode 100644
index 00000000..1291e9dc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Edge</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-edge.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Edge/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Edge</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Edge</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-edge.html">Edge</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html
new file mode 100644
index 00000000..e13316d3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Null</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-null.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Null/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Null</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-null.html">Null</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html
new file mode 100644
index 00000000..af7509db
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAF</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-p-a-f.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/PAF/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">PAF</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAF</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-p-a-f.html">PAF</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise-mapping-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise-mapping-format.html
new file mode 100644
index 00000000..3fdcab81
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise-mapping-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PairwiseMappingFormat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise-mapping-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-pairwise-mapping-format.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/PairwiseMappingFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">PairwiseMappingFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Pairwise</span><wbr></wbr><span>Mapping</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise-mapping-format.html">PairwiseMappingFormat</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html
new file mode 100644
index 00000000..9a0f65f4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Pairwise</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-pairwise.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Pairwise/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Pairwise</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Pairwise</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise.html">Pairwise</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html
new file mode 100644
index 00000000..4ceed56e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SAM</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-s-a-m.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/SAM/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">SAM</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>SAM</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-s-a-m.html">SAM</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-sequence-alignment-map.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-sequence-alignment-map.html
new file mode 100644
index 00000000..2027a1c8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-sequence-alignment-map.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SequenceAlignmentMap</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-sequence-alignment-map.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-sequence-alignment-map.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/SequenceAlignmentMap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">SequenceAlignmentMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Sequence</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Map</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-sequence-alignment-map.html">SequenceAlignmentMap</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html
new file mode 100644
index 00000000..9af857fa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TaxonomicClassification</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-taxonomic-classification.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/TaxonomicClassification/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">TaxonomicClassification</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Taxonomic</span><wbr></wbr><span><span>Classification</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-taxonomic-classification.html">TaxonomicClassification</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html
new file mode 100644
index 00000000..2ae718b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>XML</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="-x-m-l.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/XML/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">XML</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>XML</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-x-m-l.html">XML</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-json.html
new file mode 100644
index 00000000..34560761
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string-or-null.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string-or-null.html
new file mode 100644
index 00000000..7e1c6f23
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string-or-null.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromStringOrNull</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string-or-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string-or-null.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/fromStringOrNull/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromStringOrNull</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a><span class="token operator">?</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string.html
new file mode 100644
index 00000000..65193f46
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html
new file mode 100644
index 00000000..0281ea69
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html
@@ -0,0 +1,338 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="669841012%2FProperties%2F769193423" anchor-label="Bin1" id="669841012%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bin1.html"><span><span>Bin1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="669841012%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-bin1.html">Bin1</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="125458390%2FProperties%2F769193423" anchor-label="Clustering" id="125458390%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering.html"><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="125458390%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-clustering.html">Clustering</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-846809832%2FProperties%2F769193423" anchor-label="DAA" id="-846809832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-a-a.html"><span><span>DAA</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-846809832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-d-a-a.html">DAA</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-986441943%2FProperties%2F769193423" anchor-label="DiamondAlignmentArchive" id="-986441943%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-alignment-archive.html"><span>Diamond</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Archive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-986441943%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-diamond-alignment-archive.html">DiamondAlignmentArchive</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1095439327%2FProperties%2F769193423" anchor-label="Edge" id="-1095439327%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge.html"><span><span>Edge</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1095439327%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-edge.html">Edge</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1542196119%2FProperties%2F769193423" anchor-label="Null" id="1542196119%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-null.html"><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1542196119%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-null.html">Null</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="546417959%2FProperties%2F769193423" anchor-label="PAF" id="546417959%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-f.html"><span><span>PAF</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="546417959%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-p-a-f.html">PAF</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2057586176%2FProperties%2F769193423" anchor-label="Pairwise" id="2057586176%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-pairwise.html"><span><span>Pairwise</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2057586176%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise.html">Pairwise</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1837683637%2FProperties%2F769193423" anchor-label="PairwiseMappingFormat" id="1837683637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-pairwise-mapping-format.html"><span>Pairwise</span><wbr></wbr><span>Mapping</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1837683637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise-mapping-format.html">PairwiseMappingFormat</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653027%2FProperties%2F769193423" anchor-label="SAM" id="-653027%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-s-a-m.html"><span><span>SAM</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653027%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-s-a-m.html">SAM</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1899656100%2FProperties%2F769193423" anchor-label="SequenceAlignmentMap" id="1899656100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sequence-alignment-map.html"><span>Sequence</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1899656100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-sequence-alignment-map.html">SequenceAlignmentMap</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1249981996%2FProperties%2F769193423" anchor-label="TaxonomicClassification" id="-1249981996%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-taxonomic-classification.html"><span>Taxonomic</span><wbr></wbr><span><span>Classification</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1249981996%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-taxonomic-classification.html">TaxonomicClassification</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1644078053%2FProperties%2F769193423" anchor-label="XML" id="1644078053%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-x-m-l.html"><span><span>XML</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1644078053%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-x-m-l.html">XML</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="502753837%2FFunctions%2F769193423" anchor-label="fromJson" id="502753837%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502753837%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="841528129%2FFunctions%2F769193423" anchor-label="fromString" id="841528129%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="841528129%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-879541653%2FFunctions%2F769193423" anchor-label="fromStringOrNull" id="-879541653%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string-or-null.html"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-879541653%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a><span class="token operator">?</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html
new file mode 100644
index 00000000..44b8bd85
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="format-type.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr></wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html
new file mode 100644
index 00000000..bf23a295
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html
@@ -0,0 +1,162 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SimpleOutputFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">SimpleOutputFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Simple</span><wbr></wbr><span>Output</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-inline/index.html"><span class="token annotation builtin">JvmInline</span></a></div></div><span class="token keyword">value </span><span class="token keyword">class </span><a href="index.html">SimpleOutputFormat</a> : <a href="../-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="279046849%2FClasslikes%2F769193423" anchor-label="Companion" id="279046849%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="279046849%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-257787153%2FProperties%2F769193423" anchor-label="formatType" id="-257787153%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-257787153%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-832025551%2FProperties%2F769193423" anchor-label="jsonValue" id="-832025551%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="json-value.html"><span>json</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-832025551%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="508494196%2FFunctions%2F769193423" anchor-label="toString" id="508494196%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="508494196%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/json-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/json-value.html
new file mode 100644
index 00000000..69a32af0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/json-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>jsonValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/json-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="json-value.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat/jsonValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">jsonValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>json</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-value.html">jsonValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html
new file mode 100644
index 00000000..70f8323a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+        const savedDarkMode = JSON.parse(storage)
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+</head>
+<body>
+    <div class="root">
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+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
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+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
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+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
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+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html
new file mode 100644
index 00000000..b1ea7364
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html
@@ -0,0 +1,217 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.opts.output_format</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.opts.output_format</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button><button class="section-tab" data-togglable="FUNCTION,EXTENSION_FUNCTION">Functions</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-747729259%2FClasslikes%2F769193423" anchor-label="BlastTabFormat" id="-747729259%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format/index.html"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-747729259%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="-blast-tab-format/index.html">BlastTabFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-334970172%2FClasslikes%2F769193423" anchor-label="BlastTabFormatBase" id="-334970172%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format-base/index.html"><span>Blast</span><wbr></wbr><span>Tab</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Base</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-334970172%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">class </span><a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="-blast-tab-format-base/index.html">T</a><span class="token operator"> : </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt;</span> : <a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-339832682%2FClasslikes%2F769193423" anchor-label="FormatField" id="-339832682%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-format-field/index.html"><span>Format</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-339832682%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-format-field/index.html">FormatField</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1712747537%2FClasslikes%2F769193423" anchor-label="JsonFlatFormat" id="1712747537%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-json-flat-format/index.html"><span>Json</span><wbr></wbr><span>Flat</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1712747537%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="-json-flat-format/index.html">JsonFlatFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-format-field/index.html">FormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1352874607%2FClasslikes%2F769193423" anchor-label="OutputFormat" id="-1352874607%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format/index.html"><span>Output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1352874607%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-output-format/index.html">OutputFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-output-format/index.html">OutputFormat</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-202152429%2FClasslikes%2F769193423" anchor-label="OutputFormatOptions" id="-202152429%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format-options/index.html"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Options</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-202152429%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-561954561%2FClasslikes%2F769193423" anchor-label="SimpleOutputFormat" id="-561954561%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simple-output-format/index.html"><span>Simple</span><wbr></wbr><span>Output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-561954561%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-inline/index.html"><span class="token annotation builtin">JvmInline</span></a></div></div><span class="token keyword">value </span><span class="token keyword">class </span><a href="-simple-output-format/index.html">SimpleOutputFormat</a> : <a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-524413741%2FFunctions%2F769193423" anchor-label="OutputFormatOptions" id="-524413741%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format-options.html"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Options</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-524413741%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind.node/ObjectNode///PointingToDeclaration/">ObjectNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="-output-format-options.html"><span class="token function">OutputFormatOptions</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html
new file mode 100644
index 00000000..ee2ab9f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bins</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="bins.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/bins/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">bins</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>bins</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of query bins for seed search</p><p class="paragraph">Flag = <code class="lang-kotlin">--bin</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html
new file mode 100644
index 00000000..cc35c10a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dbSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="db-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/dbSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">dbSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>db</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Effective database size (in letters)</p><p class="paragraph">Flag = <code class="lang-kotlin">--dbsize</code> Default = <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html
new file mode 100644
index 00000000..118a3894
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ext-chunk-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/extChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">extChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p><p class="paragraph">Flag = <code class="lang-kotlin">--ext-chunk-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html
new file mode 100644
index 00000000..328810a5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html
@@ -0,0 +1,184 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedClusteringAlignmentOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedClusteringAlignmentOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Alignment</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="db-size.html"><span>db</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ext-chunk-size.html"><span>ext</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-auto-append.html"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-ranking.html"><span>no</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-min-mask-prob.html"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html
new file mode 100644
index 00000000..90106a78
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noAutoAppend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-auto-append.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/noAutoAppend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">noAutoAppend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Auto</span><wbr></wbr><span><span>Append</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-auto-append</code> Default = <code class="lang-kotlin">false</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html
new file mode 100644
index 00000000..4f6dc68d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-ranking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/noRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">noRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable ranking heuristic.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-ranking</code> Default = <code class="lang-kotlin">false</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html
new file mode 100644
index 00000000..8507f535
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanMinMaskProb</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tantan-min-mask-prob.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/tantanMinMaskProb/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">tantanMinMaskProb</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr></wbr><span>Min</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>Prob</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">minimum repeat probability for masking (default=0.9)</p><p class="paragraph">Flag = <code class="lang-kotlin">--tantan-minMaskProb</code> Default = <code class="lang-kotlin">0.9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html
new file mode 100644
index 00000000..41724bf0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fileBufferSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="file-buffer-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/fileBufferSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">fileBufferSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">File buffer size in bytes.</p><p class="paragraph">Flag = <code class="lang-kotlin">--file-buffer-size</code> Default = <code class="lang-kotlin">67108864</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html
new file mode 100644
index 00000000..af1de350
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ignoreWarnings</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ignore-warnings.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/ignoreWarnings/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">ignoreWarnings</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Ignore warnings</p><p class="paragraph">Flag = <code class="lang-kotlin">--ignore-warnings</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html
new file mode 100644
index 00000000..71f20857
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html
@@ -0,0 +1,154 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file-buffer-size.html"><span>file</span><wbr></wbr><span>Buffer</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ignore-warnings.html"><span>ignore</span><wbr></wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-parse-seq-i-ds.html"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-unlink.html"><span>no</span><wbr></wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html
new file mode 100644
index 00000000..cfe8bf50
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noParseSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-parse-seq-i-ds.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/noParseSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noParseSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Parse</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Print raw seqids without parsing</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-parse-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html
new file mode 100644
index 00000000..18e3ca17
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noUnlink</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-unlink.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/noUnlink/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noUnlink</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Unlink</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not unlink temporary files.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-unlink</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html
new file mode 100644
index 00000000..f512bf20
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>algo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="algo.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/algo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">algo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p><p class="paragraph">TODO: enum this</p><p class="paragraph">Flag = <code class="lang-kotlin">--algo</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html
new file mode 100644
index 00000000..c36dd581
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignLongReads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="align-long-reads.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/alignLongReads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">alignLongReads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>align</span><wbr></wbr><span>Long</span><wbr></wbr><span><span>Reads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use chaining with extension.</p><p class="paragraph">Flag = <code class="lang-kotlin">--align-long-reads</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html
new file mode 100644
index 00000000..fca6243e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>band</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="band.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/band/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">band</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>band</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Band for dynamic programming computation</p><p class="paragraph">Flag = <code class="lang-kotlin">--band</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html
new file mode 100644
index 00000000..70ff9ac6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bootstrap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="bootstrap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/bootstrap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">bootstrap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>bootstrap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--bootstrap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html
new file mode 100644
index 00000000..6d3b55e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainPenGapScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chain-pen-gap-scale.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainPenGapScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainPenGapScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Gap</span><wbr></wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Scaling factor for the chaining gap penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--chain-pen-gap-scale</code> Default = <code class="lang-kotlin">0.8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html
new file mode 100644
index 00000000..fd2fd68c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainPenSkipScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chain-pen-skip-scale.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainPenSkipScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainPenSkipScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Skip</span><wbr></wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Scaling factor for the chaining skip penalty.</p><p class="paragraph">FLAG NAME TYPO EXISTS IN THE DIAMOND SOURCE CODE!</p><p class="paragraph">Flag = <code class="lang-kotlin">--chain-pen-skip-scalee</code> Default = <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html
new file mode 100644
index 00000000..595f0f18
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-out.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainingOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainingOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use chaining without extension</p><p class="paragraph">Flag = <code class="lang-kotlin">--chaining-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html
new file mode 100644
index 00000000..550e95e9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>checkMultiTarget</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="check-multi-target.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/checkMultiTarget/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">checkMultiTarget</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>check</span><wbr></wbr><span>Multi</span><wbr></wbr><span><span>Target</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--check-multi-target</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html
new file mode 100644
index 00000000..16c3ac49
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cullingOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="culling-overlap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/cullingOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">cullingOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>culling</span><wbr></wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p><p class="paragraph">Flag = <code class="lang-kotlin">--culling-overlap</code> Default = <code class="lang-kotlin">50.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html
new file mode 100644
index 00000000..88eecf75
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cutBar</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cut-bar.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/cutBar/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">cutBar</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cut</span><wbr></wbr><span><span>Bar</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--cut-bar</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html
new file mode 100644
index 00000000..9fe04d16
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extension</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="extension.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/extension/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">extension</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>extension</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension.html">extension</a><span class="token operator">: </span><a href="../-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><p class="paragraph">Extension algorithm (wfa, ksw=default)</p><p class="paragraph">Flag = <code class="lang-kotlin">--extension</code> Default = <code class="lang-kotlin">&quot;ksw&quot;</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html
new file mode 100644
index 00000000..cd075b8a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyMapQuery</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="family-map-query.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/familyMapQuery/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">familyMapQuery</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>Query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this? TODO: how is this used?</p><p class="paragraph">File = <code class="lang-kotlin">--family-map-query</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html
new file mode 100644
index 00000000..0e561a9f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyMap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="family-map.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/familyMap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">familyMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr></wbr><span><span>Map</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this, a file?</p><p class="paragraph">Flag = <code class="lang-kotlin">--family-map</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html
new file mode 100644
index 00000000..d06e9a67
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="freq-masking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/freqMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">freqMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr></wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Mask seeds based on frequency</p><p class="paragraph">Flag = <code class="lang-kotlin">--freq-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html
new file mode 100644
index 00000000..e90fea70
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqStandardDeviation</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="freq-standard-deviation.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/freqStandardDeviation/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">freqStandardDeviation</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr></wbr><span>Standard</span><wbr></wbr><span><span>Deviation</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--freq-sd</code> Default = <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html
new file mode 100644
index 00000000..b312269b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterEValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gapped-filter-e-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/gappedFilterEValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterEValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">E-value threshold for gapped filter (auto)</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapped-filter-evalue</code> Default = <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html
new file mode 100644
index 00000000..4804e288
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>heartbeat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="heartbeat.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/heartbeat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">heartbeat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>heartbeat</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--heartbeat</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html
new file mode 100644
index 00000000..902f1b6c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>id2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="id2.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/id2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">id2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>id2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Minimum number of identities for stage 1 hit.</p><p class="paragraph">Flag = <code class="lang-kotlin">--id2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html
new file mode 100644
index 00000000..ab70c5f2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html
@@ -0,0 +1,754 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedQueryOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedQueryOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr></wbr><span>Query</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedQueryOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="align-long-reads.html"><span>align</span><wbr></wbr><span>Long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-out.html"><span>chaining</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chain-pen-gap-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Gap</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chain-pen-skip-scale.html"><span>chain</span><wbr></wbr><span>Pen</span><wbr></wbr><span>Skip</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="check-multi-target.html"><span>check</span><wbr></wbr><span>Multi</span><wbr></wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="culling-overlap.html"><span>culling</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cut-bar.html"><span>cut</span><wbr></wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension.html">extension</a><span class="token operator">: </span><a href="../-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-map.html"><span>family</span><wbr></wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-map-query.html"><span>family</span><wbr></wbr><span>Map</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-masking.html"><span>freq</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-standard-deviation.html"><span>freq</span><wbr></wbr><span>Standard</span><wbr></wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-e-value.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="lin-stage1.html"><span>lin</span><wbr></wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-e-value-scale.html"><span>log</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-orf.html"><span>min</span><wbr></wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-init.html"><span>mp</span><wbr></wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-query-chunk.html"><span>mp</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-recover.html"><span>mp</span><wbr></wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-self.html"><span>mp</span><wbr></wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-or-subject-cover.html"><span>query</span><wbr></wbr><span>Or</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-parallel-limit.html"><span>query</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="range-cover.html"><span>range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="repetition-cutoff.html"><span>repetition</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="roc-file.html"><span>roc</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sam-query-len.html"><span>sam</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-cut.html"><span>seed</span><wbr></wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shape-mask.html"><span>shape</span><wbr></wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="stop-match-score.html"><span>stop</span><wbr></wbr><span>Match</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-indexed.html"><span>target</span><wbr></wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-k.html"><span>taxon</span><wbr></wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-targets.html"><span>unaligned</span><wbr></wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="x-drop.html"><span>x</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="xml-bl-ord-format.html"><span>xml</span><wbr></wbr><span>Bl</span><wbr></wbr><span>Ord</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="z-drop.html"><span>z</span><wbr></wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html
new file mode 100644
index 00000000..dc2dbbaa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>linStage1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="lin-stage1.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/linStage1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">linStage1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>lin</span><wbr></wbr><span><span>Stage1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--lin-stage1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html
new file mode 100644
index 00000000..25a9d873
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>linsearch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="linsearch.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/linsearch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">linsearch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>linsearch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--linsearch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html
new file mode 100644
index 00000000..5dcd8ebe
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logEValueScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="log-e-value-scale.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/logEValueScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">logEValueScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--log-evalue-scale</code> Default = <code class="lang-kotlin">1.0 / std::log(2.0)</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html
new file mode 100644
index 00000000..f3e275fa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minOrf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-orf.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/minOrf/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">minOrf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span><span>Orf</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p><p class="paragraph">Flag = <code class="lang-kotlin">--min-orf</code> | <code class="lang-kotlin">-l</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html
new file mode 100644
index 00000000..62ac9e67
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpInit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mp-init.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpInit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpInit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr></wbr><span><span>Init</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Initialize multiprocessing run.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-init</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html
new file mode 100644
index 00000000..de343c80
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpQueryChunk</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mp-query-chunk.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpQueryChunk/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpQueryChunk</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Chunk</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Process only a single query chunk as specified</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-query-chunk</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html
new file mode 100644
index 00000000..ee05c747
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpRecover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mp-recover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpRecover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpRecover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr></wbr><span><span>Recover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-recover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html
new file mode 100644
index 00000000..d650dac3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpSelf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mp-self.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpSelf/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpSelf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr></wbr><span><span>Self</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-self</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html
new file mode 100644
index 00000000..760208e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>multiprocessing</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="multiprocessing.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/multiprocessing/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">multiprocessing</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>multiprocessing</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">enable distributed-memory parallel processing</p><p class="paragraph">Flag = <code class="lang-kotlin">--multiprocessing</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html
new file mode 100644
index 00000000..2f49ef3e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>penalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="penalty.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/penalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">penalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">BlastN mismatch penalty</p><p class="paragraph">Flag = <code class="lang-kotlin">--penalty</code> Default = <code class="lang-kotlin">-3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html
new file mode 100644
index 00000000..faa6f339
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryOrSubjectCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-or-subject-cover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/queryOrSubjectCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">queryOrSubjectCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span>Or</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-or-subject-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html
new file mode 100644
index 00000000..84d815ac
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryParallelLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-parallel-limit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/queryParallelLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">queryParallelLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-parallel-limit</code> Default = <code class="lang-kotlin">3000000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html
new file mode 100644
index 00000000..588d442c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rangeCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="range-cover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/rangeCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">rangeCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>range</span><wbr></wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p><p class="paragraph">Flag = <code class="lang-kotlin">--range-cover</code> Default = <code class="lang-kotlin">50.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html
new file mode 100644
index 00000000..10418689
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>repetitionCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="repetition-cutoff.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/repetitionCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">repetitionCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>repetition</span><wbr></wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p><p class="paragraph">Flag = <code class="lang-kotlin">--repetition-cutoff</code> Default = <code class="lang-kotlin">0.0002</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html
new file mode 100644
index 00000000..ff2eed7e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reward</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="reward.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/reward/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">reward</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>reward</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">BlastN match reward</p><p class="paragraph">Flag = <code class="lang-kotlin">--reward</code> Default = <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html
new file mode 100644
index 00000000..7f8950ad
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rocFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="roc-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/rocFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">rocFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>roc</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--roc-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html
new file mode 100644
index 00000000..5ab205f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>samQueryLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="sam-query-len.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/samQueryLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">samQueryLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sam</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p><p class="paragraph">Flag = <code class="lang-kotlin">--sam-query-len</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html
new file mode 100644
index 00000000..db0e1057
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedCut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="seed-cut.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/seedCut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">seedCut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr></wbr><span><span>Cut</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Cutoff for seed complexity.</p><p class="paragraph">Flag = <code class="lang-kotlin">--seed-cut</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html
new file mode 100644
index 00000000..3b53881b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapeMask</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="shape-mask.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/shapeMask/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">shapeMask</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>shape</span><wbr></wbr><span><span>Mask</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Seed shapes</p><p class="paragraph">Flag = <code class="lang-kotlin">--shape-mask</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html
new file mode 100644
index 00000000..fca974d4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>stopMatchScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="stop-match-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/stopMatchScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">stopMatchScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>stop</span><wbr></wbr><span>Match</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Set the match score of stop codons against each other.</p><p class="paragraph">Flag = <code class="lang-kotlin">--stop-match-score</code> Default = <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html
new file mode 100644
index 00000000..eca01b3b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetIndexed</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="target-indexed.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/targetIndexed/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">targetIndexed</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr></wbr><span><span>Indexed</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable target-indexed mode.</p><p class="paragraph">Flag = <code class="lang-kotlin">--target-indexed</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html
new file mode 100644
index 00000000..662e5cd3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonK</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-k.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/taxonK/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">taxonK</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span><span>K</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Maximum number of targets to report per species.</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxon-k</code> Default = <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html
new file mode 100644
index 00000000..fea36420
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedTargets</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="unaligned-targets.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/unalignedTargets/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedTargets</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr></wbr><span><span>Targets</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--unaligned-targets</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html
new file mode 100644
index 00000000..e364fba2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>xDrop</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="x-drop.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/xDrop/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">xDrop</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>x</span><wbr></wbr><span><span>Drop</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">xDrop for ungapped alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--xdrop</code> | <code class="lang-kotlin">-x</code> Default = <code class="lang-kotlin">12.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html
new file mode 100644
index 00000000..d859db2b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>xmlBlOrdFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="xml-bl-ord-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/xmlBlOrdFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">xmlBlOrdFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>xml</span><wbr></wbr><span>Bl</span><wbr></wbr><span>Ord</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p><p class="paragraph">Flag = <code class="lang-kotlin">--xml-blord-format</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html
new file mode 100644
index 00000000..e98b14d9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>zDrop</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="z-drop.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/zDrop/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">zDrop</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>z</span><wbr></wbr><span><span>Drop</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">zDrop for gapped dna alignment</p><p class="paragraph">Flag = <code class="lang-kotlin">--zdrop</code> | <code class="lang-kotlin">-z</code> Default = <code class="lang-kotlin">40</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html
new file mode 100644
index 00000000..60f2b3fb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>approxIdentity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="approx-identity.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/approxIdentity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">approxIdentity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>approx</span><wbr></wbr><span><span>Identity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p><p class="paragraph">Flag = <code class="lang-kotlin">--approx-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html
new file mode 100644
index 00000000..77261cc5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>expectValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="expect-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/expectValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">expectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>expect</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Maximum e-value to report alignments.</p><p class="paragraph">Flag = <code class="lang-kotlin">--evalue</code> | <code class="lang-kotlin">-e</code> Default = <code class="lang-kotlin">0.001</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html
new file mode 100644
index 00000000..180f0e62
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extensionMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="extension-mode.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/extensionMode/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">extensionMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>extension</span><wbr></wbr><span><span>Mode</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../-extension-mode/index.html">ExtensionMode</a></div><p class="paragraph">Extension mode.</p><p class="paragraph">Flag = <code class="lang-kotlin">--ext</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html
new file mode 100644
index 00000000..22ec7301
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html
@@ -0,0 +1,154 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerClusteringOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerClusteringOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerClusteringOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="approx-identity.html"><span>approx</span><wbr></wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="expect-value.html"><span>expect</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="extension-mode.html"><span>extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="motif-masking.html"><span>motif</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html
new file mode 100644
index 00000000..2055777f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>motifMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="motif-masking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/motifMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">motifMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>motif</span><wbr></wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><p class="paragraph">Softmask abundant motifs (0/1)</p><p class="paragraph">Flag = <code class="lang-kotlin">--motif-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html
new file mode 100644
index 00000000..5ed14e52
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>compBasedStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="comp-based-stats.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/compBasedStats/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">compBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../-composition-based-stats/index.html">CompositionBasedStats</a></div><p class="paragraph">Composition based statistics mode (0-4)</p><p class="paragraph">Flag = <code class="lang-kotlin">--comp-based-stats</code> Default = <a href="../-composition-based-stats/-hauser/index.html">CompositionBasedStats.Hauser</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html
new file mode 100644
index 00000000..cb51f953
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html
@@ -0,0 +1,169 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerClusteringRealignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerClusteringRealignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Realign</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerClusteringRealignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="comp-based-stats.html"><span>comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="masking.html">masking</a><span class="token operator">: </span><a href="../-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mmseqs-compat.html"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-block-size-limit.html"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="soft-masking.html"><span>soft</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html
new file mode 100644
index 00000000..fb37fb84
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>masking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="masking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/masking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">masking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="masking.html">masking</a><span class="token operator">: </span><a href="../-masking-mode/index.html">MaskingMode</a></div><p class="paragraph">Masking algorithm.</p><p class="paragraph">Flag = <code class="lang-kotlin">--masking</code> Default = <a href="../-masking-mode/-tantan/index.html">MaskingMode.Tantan</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html
new file mode 100644
index 00000000..73ef7947
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mmseqsCompat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mmseqs-compat.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/mmseqsCompat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">mmseqsCompat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mmseqs</span><wbr></wbr><span><span>Compat</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: document this</p><p class="paragraph">Key = <code class="lang-kotlin">--mmseqs-compat</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html
new file mode 100644
index 00000000..521625a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noBlockSizeLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-block-size-limit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/noBlockSizeLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">noBlockSizeLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Block</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: document this</p><p class="paragraph">Key = <code class="lang-kotlin">--no-block-size-limit</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html
new file mode 100644
index 00000000..9a77266c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>softMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="soft-masking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/softMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">softMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>soft</span><wbr></wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><p class="paragraph">Soft masking.</p><p class="paragraph">Default value is subcommand dependent.</p><p class="paragraph">Flag = <code class="lang-kotlin">--soft-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html
new file mode 100644
index 00000000..029a4a08
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignedFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="aligned-file-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/alignedFileFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">alignedFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><p class="paragraph">Format of aligned query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--alfmt</code> Default = <a href="../-query-file-format/-f-a-s-t-a/index.html">QueryFileFormat.FASTA</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html
new file mode 100644
index 00000000..6b68255f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignedFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="aligned-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/alignedFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">alignedFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aligned</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File or aligned queries</p><p class="paragraph">Flag = <code class="lang-kotlin">--al</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html
new file mode 100644
index 00000000..27f09018
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blockSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="block-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/blockSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">blockSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>block</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Sequence block size in billions of letters.</p><p class="paragraph">Flag = <code class="lang-kotlin">--block-size</code> | <code class="lang-kotlin">-b</code> Default = <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html
new file mode 100644
index 00000000..68d35f64
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>compress</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="compress.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/compress/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">compress</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>compress</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="compress.html">compress</a><span class="token operator">: </span><a href="../-compression/index.html">Compression</a></div><p class="paragraph">Compression for output files.</p><p class="paragraph">Flag = <code class="lang-kotlin">--compress</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html
new file mode 100644
index 00000000..1554ad9d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>customMatrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="custom-matrix.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/customMatrix/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">customMatrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>custom</span><wbr></wbr><span><span>Matrix</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File containing custom scoring matrix.</p><p class="paragraph">Flag = <code class="lang-kotlin">--custom-matrix</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html
new file mode 100644
index 00000000..a870af23
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>frameShiftPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="frame-shift-penalty.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/frameShiftPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">frameShiftPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>frame</span><wbr></wbr><span>Shift</span><wbr></wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Frame shift penalty (default=disabled)</p><p class="paragraph">Flag = <code class="lang-kotlin">--frameshift</code> | <code class="lang-kotlin">-F</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html
new file mode 100644
index 00000000..d00ad45a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gapExtendPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gap-extend-penalty.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/gapExtendPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">gapExtendPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gap</span><wbr></wbr><span>Extend</span><wbr></wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Gap extension penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapextend</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html
new file mode 100644
index 00000000..ffa46efb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gapOpenPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gap-open-penalty.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/gapOpenPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">gapOpenPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gap</span><wbr></wbr><span>Open</span><wbr></wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Gap open penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapopen</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html
new file mode 100644
index 00000000..90a4ec70
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>globalRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="global-ranking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/globalRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">globalRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>global</span><wbr></wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Number of targets for global ranking.</p><p class="paragraph">Type = <code class="lang-kotlin">--global-ranking</code> | <code class="lang-kotlin">-g</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html
new file mode 100644
index 00000000..9876e92a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeAllSubjectIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="include-all-subject-i-ds.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/includeAllSubjectIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">includeAllSubjectIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr></wbr><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include all subject ids in DAA file</p><p class="paragraph">Flag = <code class="lang-kotlin">--sallseqid</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html
new file mode 100644
index 00000000..a400980f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeFullSubjectTitles</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="include-full-subject-titles.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/includeFullSubjectTitles/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">includeFullSubjectTitles</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr></wbr><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include full subject titles in DAA file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--salltitles</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html
new file mode 100644
index 00000000..04e9e897
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>indexChunks</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index-chunks.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/indexChunks/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">indexChunks</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>index</span><wbr></wbr><span><span>Chunks</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of chunks for index processing.</p><p class="paragraph">Flag = <code class="lang-kotlin">--index-chunks</code> | <code class="lang-kotlin">-c</code> Default = <code class="lang-kotlin">4</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html
new file mode 100644
index 00000000..0f0dd368
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html
@@ -0,0 +1,604 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aligned-file.html"><span>aligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aligned-file-format.html"><span>aligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="block-size.html"><span>block</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="compress.html">compress</a><span class="token operator">: </span><a href="../-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="custom-matrix.html"><span>custom</span><wbr></wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="frame-shift-penalty.html"><span>frame</span><wbr></wbr><span>Shift</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gap-extend-penalty.html"><span>gap</span><wbr></wbr><span>Extend</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gap-open-penalty.html"><span>gap</span><wbr></wbr><span>Open</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="global-ranking.html"><span>global</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-all-subject-i-ds.html"><span>include</span><wbr></wbr><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-full-subject-titles.html"><span>include</span><wbr></wbr><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index-chunks.html"><span>index</span><wbr></wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="long-reads.html"><span>long</span><wbr></wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="matrix.html">matrix</a><span class="token operator">: </span><a href="../-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-h-s-ps.html"><span>max</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-identity-percentage.html"><span>minimum</span><wbr></wbr><span>Identity</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-query-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Query</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-subject-cover-percentage.html"><span>minimum</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-score.html"><span>min</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-self-hits.html"><span>no</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="parallel-tmp-dir.html"><span>parallel</span><wbr></wbr><span>Tmp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-gen-code.html"><span>query</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="range-culling.html"><span>range</span><wbr></wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seq-id-list.html"><span>seq</span><wbr></wbr><span>Id</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="skip-missing-seq-i-ds.html"><span>skip</span><wbr></wbr><span>Missing</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strand.html">strand</a><span class="token operator">: </span><a href="../-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-exclude.html"><span>taxon</span><wbr></wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-list.html"><span>taxon</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-file.html"><span>unaligned</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-file-format.html"><span>unaligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html
new file mode 100644
index 00000000..8eaa9e94
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>iterate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="iterate.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/iterate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">iterate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>iterate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Iterated search with increasing sensitivity.</p><p class="paragraph">Flag = <code class="lang-kotlin">--iterate</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html
new file mode 100644
index 00000000..3752a18c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>longReads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="long-reads.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/longReads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">longReads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>long</span><wbr></wbr><span><span>Reads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p><p class="paragraph">TODO: conflict detection!</p><p class="paragraph">Flag = <code class="lang-kotlin">--long-reads</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html
new file mode 100644
index 00000000..ea114959
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>matrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="matrix.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/matrix/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">matrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>matrix</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="matrix.html">matrix</a><span class="token operator">: </span><a href="../-score-matrix/index.html">ScoreMatrix</a></div><p class="paragraph">Score matrix for protein alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--matrix</code> Default = <a href="../-score-matrix/-b-l-o-s-u-m62/index.html">ScoreMatrix.BLOSUM62</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html
new file mode 100644
index 00000000..968585a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxHSPs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-h-s-ps.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/maxHSPs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">maxHSPs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span><span>HSPs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p><p class="paragraph">Flag = <code class="lang-kotlin">--max-hsps</code> Default = <code class="lang-kotlin">1u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html
new file mode 100644
index 00000000..ce1e09e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p><p class="paragraph">Flag = <code class="lang-kotlin">--min-score</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html
new file mode 100644
index 00000000..905f8c9a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumIdentityPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="minimum-identity-percentage.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumIdentityPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumIdentityPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr></wbr><span>Identity</span><wbr></wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum identity percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html
new file mode 100644
index 00000000..88feb5fa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumQueryCoverPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="minimum-query-cover-percentage.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumQueryCoverPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumQueryCoverPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr></wbr><span>Query</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum query cover percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html
new file mode 100644
index 00000000..0783b501
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumSubjectCoverPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="minimum-subject-cover-percentage.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumSubjectCoverPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumSubjectCoverPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Cover</span><wbr></wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum subject cover percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--subject-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html
new file mode 100644
index 00000000..a53dd1b8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noSelfHits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-self-hits.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/noSelfHits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noSelfHits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Hits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Suppress reporting of identical self hits.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-self-hits</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html
new file mode 100644
index 00000000..6d428cb9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>parallelTmpDir</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="parallel-tmp-dir.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/parallelTmpDir/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">parallelTmpDir</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>parallel</span><wbr></wbr><span>Tmp</span><wbr></wbr><span><span>Dir</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Directory for temporary files used by multiprocessing.</p><p class="paragraph">Flag = <code class="lang-kotlin">--parallel-tmpdir</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html
new file mode 100644
index 00000000..2ef0e730
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryGenCode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-gen-code.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/queryGenCode/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">queryGenCode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../-translator-gen-code/index.html">TranslatorGenCode</a></div><p class="paragraph">Genetic code to use to translate query.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-gencode</code> Default = <a href="../-translator-gen-code/-standard/index.html">TranslatorGenCode.Standard</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html
new file mode 100644
index 00000000..2773f9f5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>query</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/query/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">query</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><p class="paragraph">Input query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query</code> | <code class="lang-kotlin">-q</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html
new file mode 100644
index 00000000..62287df2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rangeCulling</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="range-culling.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/rangeCulling/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">rangeCulling</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>range</span><wbr></wbr><span><span>Culling</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Restrict hit culling to overlapping query ranges.</p><p class="paragraph">Flag = <code class="lang-kotlin">--range-culling</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html
new file mode 100644
index 00000000..fb5d9de2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seqIdList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="seq-id-list.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/seqIdList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">seqIdList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seq</span><wbr></wbr><span>Id</span><wbr></wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Filter the database by list of accessions.</p><p class="paragraph">Flag = <code class="lang-kotlin">--seqidlist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html
new file mode 100644
index 00000000..4d46662e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>skipMissingSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="skip-missing-seq-i-ds.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/skipMissingSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">skipMissingSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>skip</span><wbr></wbr><span>Missing</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Ignore accessions missing in the database.</p><p class="paragraph">Flag = <code class="lang-kotlin">--skip-missing-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html
new file mode 100644
index 00000000..0458b350
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>strand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="strand.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/strand/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">strand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>strand</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strand.html">strand</a><span class="token operator">: </span><a href="../-query-strand/index.html">QueryStrand</a></div><p class="paragraph">Query strands to search.</p><p class="paragraph">Flag = <code class="lang-kotlin">--strand</code> Default = <a href="../-query-strand/-both/index.html">QueryStrand.Both</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html
new file mode 100644
index 00000000..bda2ccef
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipe</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="swipe.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/swipe/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">swipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>swipe</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Exhaustive alignment against all database sequences.</p><p class="paragraph">Flag = <code class="lang-kotlin">--swipe</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html
new file mode 100644
index 00000000..f74f8c9c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonExclude</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-exclude.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/taxonExclude/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">taxonExclude</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span><span>Exclude</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Exclude list of taxon ids.</p><p class="paragraph">TODO: comma separated list on serialization!</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxon-exclude</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html
new file mode 100644
index 00000000..02e5ddcb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="taxon-list.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/taxonList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">taxonList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr></wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Restrict search to list of taxon ids.</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxonlist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html
new file mode 100644
index 00000000..31d0d4a9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unal</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="unal.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unal/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>unal</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Report unaligned queries.</p><p class="paragraph">Flag = <code class="lang-kotlin">--unal</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html
new file mode 100644
index 00000000..20251ae8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="unaligned-file-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unalignedFileFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><p class="paragraph">Format of unaligned query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--unfmt</code> Default = <a href="../-query-file-format/-f-a-s-t-a/index.html">QueryFileFormat.FASTA</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html
new file mode 100644
index 00000000..2afefb1e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="unaligned-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unalignedFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File for unaligned queries.</p><p class="paragraph">Flag = <code class="lang-kotlin">--un</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html
new file mode 100644
index 00000000..49cd04da
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fast</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="fast.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/fast/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">fast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>fast</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable fast mode.</p><p class="paragraph">This is a virtual property over the value of <a href="sensitivity.html">sensitivity</a>.</p><p class="paragraph">Flag: <code class="lang-kotlin">--fast</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html
new file mode 100644
index 00000000..9b112f2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>faster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="faster.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/faster/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">faster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>faster</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable faster mode.</p><p class="paragraph">This is a virtual property over the value of <a href="sensitivity.html">sensitivity</a>.</p><p class="paragraph">Flag: <code class="lang-kotlin">--faster</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html
new file mode 100644
index 00000000..a45a1398
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html
@@ -0,0 +1,244 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerSensitivityOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerSensitivityOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr></wbr><span>Sensitivity</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerSensitivityOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable fast mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable faster mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mid-sensitive.html"><span>mid</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable mid-sensitive mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="more-sensitive.html"><span>more</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable more sensitive mode // <code class="lang-kotlin">--more-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_more_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable sensitive mode) // <code class="lang-kotlin">--sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">// number of seed shapes (default=all available) // <code class="lang-kotlin">--shapes</code> | <code class="lang-kotlin">-s</code> // Default = `` // Type = <code class="lang-kotlin">unsigned</code> // Config Var = <code class="lang-kotlin">shapes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable mode using 30 seed shapes of weight 10 // <code class="lang-kotlin">--shapes-30x10</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_shapes30x10</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ultra-sensitive.html"><span>ultra</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable ultra sensitive mode // <code class="lang-kotlin">--ultra-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_ultra_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="very-sensitive.html"><span>very</span><wbr></wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">// enable very sensitive mode // <code class="lang-kotlin">--very-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_very_sensitive</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html
new file mode 100644
index 00000000..6354879a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>midSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mid-sensitive.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/midSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">midSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mid</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable mid-sensitive mode.</p><p class="paragraph">This is a virtual property over the value of <a href="sensitivity.html">sensitivity</a>.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mid-sensitive</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html
new file mode 100644
index 00000000..8d1ef5d1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>moreSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="more-sensitive.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/moreSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">moreSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>more</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">// enable more sensitive mode // <code class="lang-kotlin">--more-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_more_sensitive</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html
new file mode 100644
index 00000000..5d3d9d6f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="sensitive.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/sensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">sensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">// enable sensitive mode) // <code class="lang-kotlin">--sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_sensitive</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html
new file mode 100644
index 00000000..baffc5cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sensitivity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="sensitivity.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/sensitivity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">sensitivity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>sensitivity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../-sensitivity/index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html
new file mode 100644
index 00000000..e51a1955
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="shapes.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/shapes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">shapes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>shapes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">// number of seed shapes (default=all available) // <code class="lang-kotlin">--shapes</code> | <code class="lang-kotlin">-s</code> // Default = `` // Type = <code class="lang-kotlin">unsigned</code> // Config Var = <code class="lang-kotlin">shapes</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html
new file mode 100644
index 00000000..4b195079
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapes30x10</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="shapes30x10.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/shapes30x10/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">shapes30x10</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>shapes30x10</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">// enable mode using 30 seed shapes of weight 10 // <code class="lang-kotlin">--shapes-30x10</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_shapes30x10</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html
new file mode 100644
index 00000000..57e3adc0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ultraSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ultra-sensitive.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/ultraSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">ultraSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ultra</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">// enable ultra sensitive mode // <code class="lang-kotlin">--ultra-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_ultra_sensitive</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html
new file mode 100644
index 00000000..6c4a23b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>verySensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="very-sensitive.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/verySensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">verySensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>very</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">// enable very sensitive mode // <code class="lang-kotlin">--very-sensitive</code> // Default = `` // Type = <code class="lang-kotlin">bool</code> // Config Var = <code class="lang-kotlin">mode_very_sensitive</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html
new file mode 100644
index 00000000..def45839
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerViewOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerViewOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr></wbr><span>View</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerViewOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-target-seqs.html"><span>max</span><wbr></wbr><span>Target</span><wbr></wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html
new file mode 100644
index 00000000..c814ed49
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxTargetSeqs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-target-seqs.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer/maxTargetSeqs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerViewOptionContainer</a><span class="delimiter">/</span><span class="current">maxTargetSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span>Target</span><wbr></wbr><span><span>Seqs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Maximum number of target sequences to report alignments for.</p><p class="paragraph">Flag: <code class="lang-kotlin">--max-target-seqs</code> | <code class="lang-kotlin">-k</code> Default: <code class="lang-kotlin">25</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html
new file mode 100644
index 00000000..d91b7abd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>top</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="top.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer/top/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerViewOptionContainer</a><span class="delimiter">/</span><span class="current">top</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>top</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Report alignments within this percentage range of top alignment score.</p><p class="paragraph">Overrides: <code class="lang-kotlin">--max-target-seqs</code></p><p class="paragraph">Flag = <code class="lang-kotlin">--top</code> Default = <code class="lang-kotlin">100.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html
new file mode 100644
index 00000000..ab550b33
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeqIDLinear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.BlastSeqIDLinear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">BlastSeqIDLinear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDLinear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeqIDLinear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html
new file mode 100644
index 00000000..cf50c2e4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeqID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.BlastSeqID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">BlastSeqID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeqID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html
new file mode 100644
index 00000000..5192a682
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html
new file mode 100644
index 00000000..8b0e0787
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html
new file mode 100644
index 00000000..723c8f82
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1601777815%2FFunctions%2F769193423" anchor-label="fromJson" id="1601777815%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1601777815%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1779865515%2FFunctions%2F769193423" anchor-label="fromString" id="1779865515%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1779865515%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html
new file mode 100644
index 00000000..a0b79dba
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IPS4O</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.IPS4O///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">IPS4O</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>IPS4O</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">IPS4O</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html
new file mode 100644
index 00000000..cd116a76
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LoadRaw</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.LoadRaw///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">LoadRaw</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Load</span><wbr></wbr><span><span>Raw</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LoadRaw</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html
new file mode 100644
index 00000000..7ac73c81
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LoadSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.LoadSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">LoadSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Load</span><wbr></wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LoadSeqs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html
new file mode 100644
index 00000000..8b99b22a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MMapMt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.MMapMt///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">MMapMt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>MMap</span><wbr></wbr><span><span>Mt</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MMapMt</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html
new file mode 100644
index 00000000..87b25092
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MMap</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.MMap///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">MMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>MMap</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MMap</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html
new file mode 100644
index 00000000..a937d4ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SeedHit</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.SeedHit///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">SeedHit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Seed</span><wbr></wbr><span><span>Hit</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SeedHit</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html
new file mode 100644
index 00000000..7dea893a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Swipe</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Swipe///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">Swipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Swipe</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Swipe</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html
new file mode 100644
index 00000000..46e80ec9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html
new file mode 100644
index 00000000..55485ac1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html
new file mode 100644
index 00000000..8b083722
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html
@@ -0,0 +1,361 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BenchmarkType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">BenchmarkType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Benchmark</span><wbr></wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">BenchmarkType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-876246648%2FClasslikes%2F769193423" anchor-label="Swipe" id="-876246648%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-swipe/index.html">Swipe</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-876246648%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-swipe/index.html">Swipe</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="377977136%2FClasslikes%2F769193423" anchor-label="SeedHit" id="377977136%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seed-hit/index.html">SeedHit</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="377977136%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-seed-hit/index.html">SeedHit</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1631630740%2FClasslikes%2F769193423" anchor-label="LoadSeqs" id="1631630740%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-load-seqs/index.html">LoadSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1631630740%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-load-seqs/index.html">LoadSeqs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="734238512%2FClasslikes%2F769193423" anchor-label="LoadRaw" id="734238512%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-load-raw/index.html">LoadRaw</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="734238512%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-load-raw/index.html">LoadRaw</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1175513719%2FClasslikes%2F769193423" anchor-label="MMap" id="-1175513719%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-m-map/index.html">MMap</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1175513719%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-m-map/index.html">MMap</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="545770448%2FClasslikes%2F769193423" anchor-label="MMapMt" id="545770448%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-m-map-mt/index.html">MMapMt</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="545770448%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-m-map-mt/index.html">MMapMt</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1652952388%2FClasslikes%2F769193423" anchor-label="BlastSeqID" id="-1652952388%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seq-i-d/index.html">BlastSeqID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1652952388%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seq-i-d/index.html">BlastSeqID</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1388368575%2FClasslikes%2F769193423" anchor-label="BlastSeqIDLinear" id="-1388368575%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seq-i-d-linear/index.html">BlastSeqIDLinear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1388368575%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seq-i-d-linear/index.html">BlastSeqIDLinear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2106423637%2FClasslikes%2F769193423" anchor-label="IPS4O" id="2106423637%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-i-p-s4-o/index.html">IPS4O</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2106423637%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-i-p-s4-o/index.html">IPS4O</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-403313365%2FClasslikes%2F769193423" anchor-label="Companion" id="-403313365%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-403313365%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1943029996%2FProperties%2F769193423" anchor-label="entries" id="-1943029996%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1943029996%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="644957960%2FFunctions%2F769193423" anchor-label="valueOf" id="644957960%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="644957960%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1801158124%2FFunctions%2F769193423" anchor-label="values" id="-1801158124%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1801158124%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html
new file mode 100644
index 00000000..50032195
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html
new file mode 100644
index 00000000..4bdff23a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BenchmarkType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html
new file mode 100644
index 00000000..b4f011cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html
new file mode 100644
index 00000000..de5e4a5c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterSteps</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-steps.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/clusterSteps/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">clusterSteps</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Clustering steps.</p><p class="paragraph">Flag = <code class="lang-kotlin">--cluster-steps</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html
new file mode 100644
index 00000000..787a4404
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html
@@ -0,0 +1,154 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-steps.html"><span>cluster</span><wbr></wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="kmer-ranking.html"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="round-approx-i-d.html"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="round-coverage.html"><span>round</span><wbr></wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html
new file mode 100644
index 00000000..cc733f8e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>kmerRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="kmer-ranking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/kmerRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">kmerRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>kmer</span><wbr></wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p><p class="paragraph">Flag = <code class="lang-kotlin">--kmer-ranking</code> Default = `` Type = <code class="lang-kotlin">bool</code> Config Var = <code class="lang-kotlin">kmer_ranking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html
new file mode 100644
index 00000000..f4b359b3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>roundApproxID</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="round-approx-i-d.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/roundApproxID/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">roundApproxID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>round</span><wbr></wbr><span>Approx</span><wbr></wbr><span><span>ID</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p><p class="paragraph">Flag = <code class="lang-kotlin">--round-approx-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html
new file mode 100644
index 00000000..649d347b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>roundCoverage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="round-coverage.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/roundCoverage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">roundCoverage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>round</span><wbr></wbr><span><span>Coverage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p><p class="paragraph">Flag = <code class="lang-kotlin">--round-coverage</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html
new file mode 100644
index 00000000..f90f35ea
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clustersFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="clusters-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringInputOptionContainer/clustersFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringInputOptionContainer</a><span class="delimiter">/</span><span class="current">clustersFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>clusters</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p><p class="paragraph">Flag = <code class="lang-kotlin">--clusters</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html
new file mode 100644
index 00000000..3b966662
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringInputOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringInputOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringInputOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr></wbr><span>Input</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringInputOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="clusters-file.html"><span>clusters</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html
new file mode 100644
index 00000000..c0a204bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringReassignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringReassignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr></wbr><span>Reassign</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringReassignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="member-cover.html"><span>member</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="memory-limit.html"><span>memory</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mutual-cover.html"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html
new file mode 100644
index 00000000..38e959b8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memberCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="member-cover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/memberCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">memberCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>member</span><wbr></wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p><p class="paragraph">Flag = <code class="lang-kotlin">--member-cover</code> Default = <code class="lang-kotlin">80.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html
new file mode 100644
index 00000000..182b1b03
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memoryLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="memory-limit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/memoryLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">memoryLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>memory</span><wbr></wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Memory limit in GB</p><p class="paragraph">Flag = <code class="lang-kotlin">--memory-limit</code> | <code class="lang-kotlin">-M</code> Default = <code class="lang-kotlin">&quot;16G&quot;</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html
new file mode 100644
index 00000000..bac982fb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mutualCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mutual-cover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/mutualCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">mutualCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mutual</span><wbr></wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mutual-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html
new file mode 100644
index 00000000..dfc3ada4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompBasedStatsAndMatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.CompBasedStatsAndMatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">CompBasedStatsAndMatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Comp</span><wbr></wbr><span>Based</span><wbr></wbr><span>Stats</span><wbr></wbr><span>And</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">CompBasedStatsAndMatrixAdjust</a></div></div><p class="paragraph">6 -> COMP_BASED_STATS_AND_MATRIX_ADJUST</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html
new file mode 100644
index 00000000..8b3f9de3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompBasedStats</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.CompBasedStats///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">CompBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Comp</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">CompBasedStats</a></div></div><p class="paragraph">5 -> COMP_BASED_STATS</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-int.html
new file mode 100644
index 00000000..98031f14
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html
new file mode 100644
index 00000000..6be68cf4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-string.html
new file mode 100644
index 00000000..559257dc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html
new file mode 100644
index 00000000..12cf6e8b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1358915776%2FFunctions%2F769193423" anchor-label="fromInt" id="-1358915776%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1358915776%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1722135784%2FFunctions%2F769193423" anchor-label="fromJson" id="-1722135784%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1722135784%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1400366380%2FFunctions%2F769193423" anchor-label="fromString" id="1400366380%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1400366380%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html
new file mode 100644
index 00000000..dcabde57
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Deprecated1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Deprecated1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Deprecated1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Deprecated1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Deprecated1</a></div></div><p class="paragraph">2 -> DEPRECATED1</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html
new file mode 100644
index 00000000..bfcd7efd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Disabled</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Disabled///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Disabled</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Disabled</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Disabled</a></div></div><p class="paragraph">0 -> DISABLED</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-average-matrix-adjust/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-average-matrix-adjust/index.html
new file mode 100644
index 00000000..37d19b20
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-average-matrix-adjust/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HauserAndAverageMatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-average-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.HauserAndAverageMatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">HauserAndAverageMatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hauser</span><wbr></wbr><span>And</span><wbr></wbr><span>Average</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html"><strike>HauserAndAverageMatrixAdjust</strike></a></div></div><div class="deprecation-content"><h3 class="">Deprecated</h3><p class="paragraph">renamed to &quot;DEPRECATED1&quot; as of DIAMOND v2.1.0</p></div><p class="paragraph">2 -> HAUSER_AND_AVG_MATRIX_ADJUST</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html
new file mode 100644
index 00000000..bfdb7164
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HauserAndMatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.HauserAndMatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">HauserAndMatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hauser</span><wbr></wbr><span>And</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HauserAndMatrixAdjust</a></div></div><p class="paragraph">3 -> HAUSER_AND_MATRIX_ADJUST</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html
new file mode 100644
index 00000000..64a0f219
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HauserGlobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.HauserGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">HauserGlobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hauser</span><wbr></wbr><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">HauserGlobal</a></div></div><p class="paragraph">7 -> HAUSER_GLOBAL</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html
new file mode 100644
index 00000000..4a0ca2ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Hauser</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Hauser///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Hauser</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Hauser</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Hauser</a></div></div><p class="paragraph">1 -> HAUSER</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html
new file mode 100644
index 00000000..bf5d8b0d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.MatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">MatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Matrix</span><wbr></wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MatrixAdjust</a></div></div><p class="paragraph">4 -> MATRIX_ADJUST</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html
new file mode 100644
index 00000000..2acc0a82
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html
new file mode 100644
index 00000000..6ead1576
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html
new file mode 100644
index 00000000..bd38a524
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html
@@ -0,0 +1,391 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompositionBasedStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
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+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">CompositionBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Composition</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">CompositionBasedStats</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="1156476567%2FClasslikes%2F769193423" anchor-label="Disabled" id="1156476567%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-disabled/index.html">Disabled</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1156476567%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-disabled/index.html">Disabled</a></div></div><div class="brief "><p class="paragraph">0 -> DISABLED</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1345908705%2FClasslikes%2F769193423" anchor-label="Hauser" id="-1345908705%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser/index.html">Hauser</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1345908705%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hauser/index.html">Hauser</a></div></div><div class="brief "><p class="paragraph">1 -> HAUSER</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-43300597%2FClasslikes%2F769193423" anchor-label="Deprecated1" id="-43300597%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deprecated1/index.html">Deprecated1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-43300597%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-deprecated1/index.html">Deprecated1</a></div></div><div class="brief "><p class="paragraph">2 -> DEPRECATED1</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="890926485%2FClasslikes%2F769193423" anchor-label="HauserAndAverageMatrixAdjust" id="890926485%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser-and-average-matrix-adjust/index.html">HauserAndAverageMatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="890926485%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hauser-and-average-matrix-adjust/index.html"><strike>HauserAndAverageMatrixAdjust</strike></a></div></div><div class="brief "><p class="paragraph">2 -> HAUSER_AND_AVG_MATRIX_ADJUST</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1798565744%2FClasslikes%2F769193423" anchor-label="HauserAndMatrixAdjust" id="1798565744%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser-and-matrix-adjust/index.html">HauserAndMatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1798565744%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hauser-and-matrix-adjust/index.html">HauserAndMatrixAdjust</a></div></div><div class="brief "><p class="paragraph">3 -> HAUSER_AND_MATRIX_ADJUST</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1314161589%2FClasslikes%2F769193423" anchor-label="MatrixAdjust" id="-1314161589%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-matrix-adjust/index.html">MatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1314161589%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-matrix-adjust/index.html">MatrixAdjust</a></div></div><div class="brief "><p class="paragraph">4 -> MATRIX_ADJUST</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1922530230%2FClasslikes%2F769193423" anchor-label="CompBasedStats" id="1922530230%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-comp-based-stats/index.html">CompBasedStats</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1922530230%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-comp-based-stats/index.html">CompBasedStats</a></div></div><div class="brief "><p class="paragraph">5 -> COMP_BASED_STATS</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1289092359%2FClasslikes%2F769193423" anchor-label="CompBasedStatsAndMatrixAdjust" id="-1289092359%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-comp-based-stats-and-matrix-adjust/index.html">CompBasedStatsAndMatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1289092359%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-comp-based-stats-and-matrix-adjust/index.html">CompBasedStatsAndMatrixAdjust</a></div></div><div class="brief "><p class="paragraph">6 -> COMP_BASED_STATS_AND_MATRIX_ADJUST</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1985941602%2FClasslikes%2F769193423" anchor-label="HauserGlobal" id="1985941602%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser-global/index.html">HauserGlobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1985941602%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-hauser-global/index.html">HauserGlobal</a></div></div><div class="brief "><p class="paragraph">7 -> HAUSER_GLOBAL</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1937740372%2FClasslikes%2F769193423" anchor-label="Companion" id="-1937740372%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1937740372%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-961387563%2FProperties%2F769193423" anchor-label="entries" id="-961387563%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-961387563%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="json-name.html"><span>json</span><wbr></wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1400892404%2FProperties%2F769193423" anchor-label="rawCliValue" id="-1400892404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="raw-cli-value.html"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1400892404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-623174681%2FFunctions%2F769193423" anchor-label="valueOf" id="-623174681%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-623174681%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="447265075%2FFunctions%2F769193423" anchor-label="values" id="447265075%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="447265075%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html
new file mode 100644
index 00000000..f6f037d3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>jsonName</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="json-name.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/jsonName/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">jsonName</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>json</span><wbr></wbr><span><span>Name</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/raw-cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/raw-cli-value.html
new file mode 100644
index 00000000..84a92320
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/raw-cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rawCliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/raw-cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="raw-cli-value.html">v0.2.0</a><a href="../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/rawCliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">rawCliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>raw</span><wbr></wbr><span>Cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="raw-cli-value.html">rawCliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html
new file mode 100644
index 00000000..ca076f8f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html
new file mode 100644
index 00000000..f5cffd48
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">CompositionBasedStats</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html
new file mode 100644
index 00000000..2c0d98b2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html
new file mode 100644
index 00000000..7f11e002
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html
new file mode 100644
index 00000000..b8945e75
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html
new file mode 100644
index 00000000..94e04519
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html
new file mode 100644
index 00000000..478878ac
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="745952400%2FFunctions%2F769193423" anchor-label="fromInt" id="745952400%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="745952400%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1084611688%2FFunctions%2F769193423" anchor-label="fromJson" id="1084611688%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1084611688%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1495374212%2FFunctions%2F769193423" anchor-label="fromString" id="-1495374212%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1495374212%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html
new file mode 100644
index 00000000..569b8c70
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html
new file mode 100644
index 00000000..5249f133
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ZLib</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.ZLib///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">ZLib</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ZLib</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ZLib</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html
new file mode 100644
index 00000000..23d94661
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ZStd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.ZStd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">ZStd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ZStd</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ZStd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html
new file mode 100644
index 00000000..a3e4dc85
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html
new file mode 100644
index 00000000..94e95a1b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html
new file mode 100644
index 00000000..55444fec
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html
@@ -0,0 +1,271 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Compression</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
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+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
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+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">Compression</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Compression</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">Compression</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1683116253%2FClasslikes%2F769193423" anchor-label="None" id="-1683116253%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1683116253%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1745088598%2FClasslikes%2F769193423" anchor-label="ZLib" id="1745088598%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-z-lib/index.html">ZLib</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1745088598%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-z-lib/index.html">ZLib</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-928875660%2FClasslikes%2F769193423" anchor-label="ZStd" id="-928875660%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-z-std/index.html">ZStd</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-928875660%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-z-std/index.html">ZStd</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-506339588%2FClasslikes%2F769193423" anchor-label="Companion" id="-506339588%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-506339588%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1297082661%2FProperties%2F769193423" anchor-label="entries" id="1297082661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1297082661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1972586345%2FFunctions%2F769193423" anchor-label="valueOf" id="-1972586345%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1972586345%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Compression</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1835185693%2FFunctions%2F769193423" anchor-label="values" id="-1835185693%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1835185693%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html
new file mode 100644
index 00000000..bdf671c1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html
new file mode 100644
index 00000000..cd8adf61
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Compression</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html
new file mode 100644
index 00000000..f9b1c97e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..7925dbf0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..40c0297a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html
new file mode 100644
index 00000000..e962a5c0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1394249991%2FFunctions%2F769193423" anchor-label="fromJson" id="1394249991%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1394249991%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1353074715%2FFunctions%2F769193423" anchor-label="fromString" id="1353074715%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1353074715%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html
new file mode 100644
index 00000000..5883a1c8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>KSW</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.KSW///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">KSW</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>KSW</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">KSW</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html
new file mode 100644
index 00000000..76c3d6f3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>WFA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.WFA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">WFA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>WFA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">WFA</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html
new file mode 100644
index 00000000..756aa3d4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html
new file mode 100644
index 00000000..510ce7a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
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+    <div class="root">
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+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html
new file mode 100644
index 00000000..fe2cfb5d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DNAExtensionAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">DNAExtensionAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>DNAExtension</span><wbr></wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DNAExtensionAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-2133262419%2FClasslikes%2F769193423" anchor-label="KSW" id="-2133262419%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-k-s-w/index.html">KSW</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2133262419%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-k-s-w/index.html">KSW</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="759003088%2FClasslikes%2F769193423" anchor-label="WFA" id="759003088%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-w-f-a/index.html">WFA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="759003088%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-w-f-a/index.html">WFA</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-479990373%2FClasslikes%2F769193423" anchor-label="Companion" id="-479990373%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-479990373%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-285011068%2FProperties%2F769193423" anchor-label="entries" id="-285011068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-285011068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1208246120%2FFunctions%2F769193423" anchor-label="valueOf" id="-1208246120%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1208246120%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="884725668%2FFunctions%2F769193423" anchor-label="values" id="884725668%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="884725668%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html
new file mode 100644
index 00000000..60937462
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html
new file mode 100644
index 00000000..db72eec1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DNAExtensionAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html
new file mode 100644
index 00000000..02c261d3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html
new file mode 100644
index 00000000..6de35c35
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">BitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html
new file mode 100644
index 00000000..aeeb5b8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html
new file mode 100644
index 00000000..d8594be2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html
new file mode 100644
index 00000000..8e0074c1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="383523570%2FFunctions%2F769193423" anchor-label="fromJson" id="383523570%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="383523570%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1568726266%2FFunctions%2F769193423" anchor-label="fromString" id="-1568726266%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1568726266%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html
new file mode 100644
index 00000000..f4839099
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExpectValue</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.ExpectValue///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">ExpectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Expect</span><wbr></wbr><span><span>Value</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ExpectValue</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html
new file mode 100644
index 00000000..cdcf7551
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html
new file mode 100644
index 00000000..2c13e75e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html
new file mode 100644
index 00000000..4a51bcaf
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DistributionType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">DistributionType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Distribution</span><wbr></wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DistributionType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1985594694%2FClasslikes%2F769193423" anchor-label="BitScore" id="-1985594694%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bit-score/index.html">BitScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1985594694%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bit-score/index.html">BitScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1694865877%2FClasslikes%2F769193423" anchor-label="ExpectValue" id="-1694865877%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-expect-value/index.html">ExpectValue</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1694865877%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-expect-value/index.html">ExpectValue</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1997071994%2FClasslikes%2F769193423" anchor-label="Companion" id="-1997071994%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1997071994%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="884358703%2FProperties%2F769193423" anchor-label="entries" id="884358703%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="884358703%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-815635507%2FFunctions%2F769193423" anchor-label="valueOf" id="-815635507%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-815635507%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="368257945%2FFunctions%2F769193423" anchor-label="values" id="368257945%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="368257945%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html
new file mode 100644
index 00000000..9d1a3d4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html
new file mode 100644
index 00000000..2d9c471b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DistributionType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html
new file mode 100644
index 00000000..d3f1a1a9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html
new file mode 100644
index 00000000..3dc1aa73
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html
new file mode 100644
index 00000000..5cbd0e67
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html
new file mode 100644
index 00000000..7acf0484
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-971883588%2FFunctions%2F769193423" anchor-label="fromJson" id="-971883588%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-971883588%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-799899184%2FFunctions%2F769193423" anchor-label="fromString" id="-799899184%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-799899184%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html
new file mode 100644
index 00000000..5113d2cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Default</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
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+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
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+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Default///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Default</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Default</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Default</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html
new file mode 100644
index 00000000..2ef8fe22
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Triplet</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Triplet///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Triplet</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Triplet</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Triplet</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html
new file mode 100644
index 00000000..27891f07
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html
new file mode 100644
index 00000000..c2c73095
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html
new file mode 100644
index 00000000..cab53fc7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EdgeFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">EdgeFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Edge</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">EdgeFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1710637217%2FClasslikes%2F769193423" anchor-label="Triplet" id="-1710637217%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-triplet/index.html">Triplet</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1710637217%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-triplet/index.html">Triplet</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2022636406%2FClasslikes%2F769193423" anchor-label="Default" id="-2022636406%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-default/index.html">Default</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2022636406%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-default/index.html">Default</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="935442000%2FClasslikes%2F769193423" anchor-label="Companion" id="935442000%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="935442000%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1177912697%2FProperties%2F769193423" anchor-label="entries" id="1177912697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1177912697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826983619%2FFunctions%2F769193423" anchor-label="valueOf" id="826983619%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826983619%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">EdgeFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1423387889%2FFunctions%2F769193423" anchor-label="values" id="-1423387889%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1423387889%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html
new file mode 100644
index 00000000..808ba63c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html
new file mode 100644
index 00000000..fd2e85da
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">EdgeFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html
new file mode 100644
index 00000000..e3896731
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html
new file mode 100644
index 00000000..e73da1ff
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BandedFast</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.BandedFast///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">BandedFast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Banded</span><wbr></wbr><span><span>Fast</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BandedFast</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html
new file mode 100644
index 00000000..3415e8e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BandedSlow</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.BandedSlow///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">BandedSlow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Banded</span><wbr></wbr><span><span>Slow</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BandedSlow</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html
new file mode 100644
index 00000000..92824865
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html
new file mode 100644
index 00000000..4942ff5a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html
new file mode 100644
index 00000000..6477b0c0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="375481868%2FFunctions%2F769193423" anchor-label="fromJson" id="375481868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="375481868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2001232864%2FFunctions%2F769193423" anchor-label="fromString" id="-2001232864%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2001232864%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html
new file mode 100644
index 00000000..4f114b1c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Full</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Full///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Full</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Full</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Full</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html
new file mode 100644
index 00000000..3f30a60f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Global</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Global///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Global</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Global</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html
new file mode 100644
index 00000000..b1002f5e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html
new file mode 100644
index 00000000..213c0731
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html
new file mode 100644
index 00000000..8f232f5f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html
@@ -0,0 +1,301 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExtensionMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ExtensionMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Extension</span><wbr></wbr><span><span>Mode</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">ExtensionMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-2056021153%2FClasslikes%2F769193423" anchor-label="BandedFast" id="-2056021153%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-banded-fast/index.html">BandedFast</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2056021153%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-banded-fast/index.html">BandedFast</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1930986052%2FClasslikes%2F769193423" anchor-label="BandedSlow" id="1930986052%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-banded-slow/index.html">BandedSlow</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1930986052%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-banded-slow/index.html">BandedSlow</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1152437726%2FClasslikes%2F769193423" anchor-label="Full" id="1152437726%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full/index.html">Full</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1152437726%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full/index.html">Full</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2121306418%2FClasslikes%2F769193423" anchor-label="Global" id="2121306418%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-global/index.html">Global</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2121306418%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-global/index.html">Global</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="789364896%2FClasslikes%2F769193423" anchor-label="Companion" id="789364896%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="789364896%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570839607%2FProperties%2F769193423" anchor-label="entries" id="-1570839607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570839607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1525077901%2FFunctions%2F769193423" anchor-label="valueOf" id="-1525077901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1525077901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-265131329%2FFunctions%2F769193423" anchor-label="values" id="-265131329%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-265131329%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html
new file mode 100644
index 00000000..10618219
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html
new file mode 100644
index 00000000..00fd9cfd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ExtensionMode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html
new file mode 100644
index 00000000..46d8322f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html
new file mode 100644
index 00000000..5445444c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html
new file mode 100644
index 00000000..0fb63281
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>databaseFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="database-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralDBOptionContainer/databaseFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralDBOptionContainer</a><span class="delimiter">/</span><span class="current">databaseFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>database</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the target DIAMOND database file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--db</code> | <code class="lang-kotlin">-d</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html
new file mode 100644
index 00000000..5a57132d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralDBOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralDBOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralDBOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr></wbr><span>DBOption</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralDBOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="database-file.html"><span>database</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html
new file mode 100644
index 00000000..59a7f67c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html
@@ -0,0 +1,169 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="temp-dir.html"><span>temp</span><wbr></wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html
new file mode 100644
index 00000000..f7a03ce7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>log</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="log.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/log/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">log</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>log</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--log</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: how does this interact with <a href="quiet.html">quiet</a> and <a href="verbose.html">verbose</a>?</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html
new file mode 100644
index 00000000..c7f6ea0c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>quiet</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="quiet.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/quiet/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">quiet</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>quiet</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable all terminal output.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--quiet</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: verify whether this is mutually exclusive with <a href="verbose.html">verbose</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html
new file mode 100644
index 00000000..a2b5add7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tempDir</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="temp-dir.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/tempDir/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">tempDir</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>temp</span><wbr></wbr><span><span>Dir</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Directory for temporary files.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--tmpdir/-t &lt;path&gt;</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">null</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html
new file mode 100644
index 00000000..075a21a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>threads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="threads.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/threads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">threads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>threads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Number of CPU threads.</p><p class="paragraph">By default, the program will auto-detect and use all available virtual cores on the machine.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--threads/-p #</code></p></blockquote><p class="paragraph">Setting this to a value that is less than or equal to zero results in the option being omitted from the CLI call.</p><p class="paragraph">Default: <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html
new file mode 100644
index 00000000..3dba3a00
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>verbose</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="verbose.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/verbose/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">verbose</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>verbose</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable more verbose terminal output.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--verbose/-v</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: verify whether this is mutually exclusive with <a href="quiet.html">quiet</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html
new file mode 100644
index 00000000..a650b18f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>header</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="header.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputHeaderOptionContainer/header/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOutputHeaderOptionContainer</a><span class="delimiter">/</span><span class="current">header</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>header</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="header.html">header</a><span class="token operator">: </span><a href="../-header-option/index.html">HeaderOption</a></div><p class="paragraph">Use header lines in tabular output format.</p><ul><li><p class="paragraph">Flag: <code class="lang-kotlin">--header</code></p></li><li><p class="paragraph">Default: <a href="../-header-option/-none/index.html">HeaderOption.None</a></p></li></ul></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html
new file mode 100644
index 00000000..50bbc68c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOutputHeaderOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputHeaderOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOutputHeaderOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr></wbr><span>Output</span><wbr></wbr><span>Header</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOutputHeaderOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="header.html">header</a><span class="token operator">: </span><a href="../-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html
new file mode 100644
index 00000000..eba358b3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOutputOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOutputOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr></wbr><span>Output</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOutputOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-file.html"><span>output</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html
new file mode 100644
index 00000000..68e612f7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="output-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputOptionContainer/outputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOutputOptionContainer</a><span class="delimiter">/</span><span class="current">outputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p><ul><li><p class="paragraph">Flag = <code class="lang-kotlin">--out</code> | <code class="lang-kotlin">-o</code></p></li></ul></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..d9b59b63
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..be733cb4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html
new file mode 100644
index 00000000..c14ca4ff
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1431848815%2FFunctions%2F769193423" anchor-label="fromJson" id="1431848815%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1431848815%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-164710781%2FFunctions%2F769193423" anchor-label="fromString" id="-164710781%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-164710781%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..0367b919
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.GreedyVortexCover///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr></wbr><span>Vortex</span><wbr></wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GreedyVortexCover</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html
new file mode 100644
index 00000000..c12aa61f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LengthSorted</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.LengthSorted///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">LengthSorted</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Length</span><wbr></wbr><span><span>Sorted</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LengthSorted</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html
new file mode 100644
index 00000000..4ef4b5fc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html
new file mode 100644
index 00000000..2f078c1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html
new file mode 100644
index 00000000..ba8b0e26
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GraphAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GraphAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Graph</span><wbr></wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">GraphAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-65191393%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="-65191393%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65191393%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="748400373%2FClasslikes%2F769193423" anchor-label="LengthSorted" id="748400373%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-length-sorted/index.html">LengthSorted</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="748400373%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-length-sorted/index.html">LengthSorted</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1428220925%2FClasslikes%2F769193423" anchor-label="Companion" id="-1428220925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1428220925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2006666260%2FProperties%2F769193423" anchor-label="entries" id="-2006666260%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2006666260%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2074613456%2FFunctions%2F769193423" anchor-label="valueOf" id="-2074613456%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2074613456%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1106283068%2FFunctions%2F769193423" anchor-label="values" id="1106283068%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1106283068%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html
new file mode 100644
index 00000000..1d67eefd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html
new file mode 100644
index 00000000..e2013a34
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
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+<link href="../../../styles/multimodule.css" rel="Stylesheet">
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+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">GraphAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html
new file mode 100644
index 00000000..dd17c538
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html
new file mode 100644
index 00000000..27a83475
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Enabled</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Enabled///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Enabled</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Enabled</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Enabled</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html
new file mode 100644
index 00000000..b95c3fb4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html
new file mode 100644
index 00000000..8729218c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Simple</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Simple///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Simple</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Simple</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Simple</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html
new file mode 100644
index 00000000..8a9bb0cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Verbose</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Verbose///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Verbose</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Verbose</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Verbose</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html
new file mode 100644
index 00000000..b3ae6cdd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html
new file mode 100644
index 00000000..f65b3230
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html
@@ -0,0 +1,237 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HeaderOption</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">HeaderOption</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Header</span><wbr></wbr><span><span>Option</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">HeaderOption</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-85030359%2FClasslikes%2F769193423" anchor-label="None" id="-85030359%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-85030359%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-513404776%2FClasslikes%2F769193423" anchor-label="Enabled" id="-513404776%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-enabled/index.html">Enabled</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-513404776%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-enabled/index.html">Enabled</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="117825507%2FClasslikes%2F769193423" anchor-label="Simple" id="117825507%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simple/index.html">Simple</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="117825507%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-simple/index.html">Simple</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1649642265%2FClasslikes%2F769193423" anchor-label="Verbose" id="1649642265%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-verbose/index.html">Verbose</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1649642265%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-verbose/index.html">Verbose</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1105029717%2FProperties%2F769193423" anchor-label="entries" id="-1105029717%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1105029717%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1133963823%2FFunctions%2F769193423" anchor-label="valueOf" id="-1133963823%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1133963823%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="304084125%2FFunctions%2F769193423" anchor-label="values" id="304084125%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="304084125%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html
new file mode 100644
index 00000000..590418b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">HeaderOption</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html
new file mode 100644
index 00000000..44de21f6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html
new file mode 100644
index 00000000..b06f52ae
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>addSelfAln</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="add-self-aln.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/addSelfAln/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">addSelfAln</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html
new file mode 100644
index 00000000..f97d1eb2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alnOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="aln-out.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/alnOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">alnOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aln</span><wbr></wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html
new file mode 100644
index 00000000..6ca6f74e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchorScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="anchor-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchorScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchorScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchor</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html
new file mode 100644
index 00000000..4d3a3c6a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchorWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="anchor-window.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchorWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchorWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchor</span><wbr></wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">12</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html
new file mode 100644
index 00000000..77518243
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchoredSwipe</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="anchored-swipe.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchoredSwipe/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchoredSwipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html
new file mode 100644
index 00000000..3eb9119a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ants</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ants.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ants/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ants</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ants</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p><p class="paragraph">Default: <code class="lang-kotlin">100</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html
new file mode 100644
index 00000000..90373ed7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>approxBacktrace</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="approx-backtrace.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/approxBacktrace/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">approxBacktrace</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html
new file mode 100644
index 00000000..8c97f63e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="b-cutoff.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html
new file mode 100644
index 00000000..d2fa1805
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bMatch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="b-match.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bMatch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bMatch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr></wbr><span><span>Match</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html
new file mode 100644
index 00000000..9101ebd8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bMismatch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="b-mismatch.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bMismatch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bMismatch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html
new file mode 100644
index 00000000..f4a177ae
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bandBin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="band-bin.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bandBin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bandBin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>band</span><wbr></wbr><span><span>Bin</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p><p class="paragraph">Default: <code class="lang-kotlin">24</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html
new file mode 100644
index 00000000..5df58683
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bootstrapBlock</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="bootstrap-block.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bootstrapBlock/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bootstrapBlock</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p><p class="paragraph">Default: <code class="lang-kotlin">1000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html
new file mode 100644
index 00000000..1809d3bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsAngle</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cbs-angle.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsAngle/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsAngle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html
new file mode 100644
index 00000000..8f3b9cf8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsErrTolerance</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cbs-err-tolerance.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsErrTolerance/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsErrTolerance</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.00000001</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html
new file mode 100644
index 00000000..836b4c77
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsItLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cbs-it-limit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsItLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsItLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html
new file mode 100644
index 00000000..af2c06e4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsMatrixScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cbs-matrix-scale.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsMatrixScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsMatrixScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p><p class="paragraph">Default: <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html
new file mode 100644
index 00000000..6b64f30c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cbs-window.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr></wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">40</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html
new file mode 100644
index 00000000..078d5651
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>centroidFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="centroid-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/centroidFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">centroidFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html
new file mode 100644
index 00000000..5c701d89
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingLenCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-len-cap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingLenCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingLenCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p><p class="paragraph">Default: <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html
new file mode 100644
index 00000000..6b52fcdc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMaxGap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-max-gap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMaxGap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMaxGap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html
new file mode 100644
index 00000000..3905ed33
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMaxNodes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-max-nodes.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMaxNodes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMaxNodes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html
new file mode 100644
index 00000000..a6998684
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMinNodes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-min-nodes.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMinNodes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMinNodes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p><p class="paragraph">Default: <code class="lang-kotlin">200</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html
new file mode 100644
index 00000000..7e63c46e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingRangeCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-range-cover.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingRangeCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingRangeCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p><p class="paragraph">Default = <code class="lang-kotlin">8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html
new file mode 100644
index 00000000..8ac98708
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingStackedHSPRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chaining-stacked-h-s-p-ratio.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingStackedHSPRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingStackedHSPRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html
new file mode 100644
index 00000000..093db30c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chunkSizeMultiplier</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="chunk-size-multiplier.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chunkSizeMultiplier/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chunkSizeMultiplier</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p><p class="paragraph">Default: <code class="lang-kotlin">4</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html
new file mode 100644
index 00000000..25ecc639
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>classicBand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="classic-band.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/classicBand/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">classicBand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>classic</span><wbr></wbr><span><span>Band</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html
new file mode 100644
index 00000000..3e20b615
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterAlgo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-algo.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterAlgo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterAlgo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Clustering algorithm ('mcl')</p><p class="paragraph">TODO: actual values for this enum are dependent on compile flags, it seems     that &quot;cascaded&quot; is the only 'safe' option, &quot;mcl&quot; is dependent on a     compile flag.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-algo</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html
new file mode 100644
index 00000000..82d35573
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterGraphFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-graph-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterGraphFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterGraphFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-graph-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html
new file mode 100644
index 00000000..b6fa7e98
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterRestart</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-restart.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterRestart/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterRestart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Restart clustering from dumped graph.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-restart</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html
new file mode 100644
index 00000000..3a995a37
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterSimilarity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-similarity.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterSimilarity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterSimilarity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Clustering similarity measure.</p><p class="paragraph">TODO: this is some sort of expression string, it's currently unclear what     its rules are.  This should be converted to a complex type for     validation.</p><p class="paragraph">TODO: only seems relevant to <code class="lang-kotlin">cluster</code>, <code class="lang-kotlin">deepclust</code>, <code class="lang-kotlin">linclust</code></p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-similarity</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html
new file mode 100644
index 00000000..d22904bb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cluster-threshold.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Threshold for the similarity measure.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html
new file mode 100644
index 00000000..361924d3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>colBin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="col-bin.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/colBin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">colBin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>col</span><wbr></wbr><span><span>Bin</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p><p class="paragraph">Default: <code class="lang-kotlin">400</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html
new file mode 100644
index 00000000..7fb76ceb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cutoffScore8Bit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cutoff-score8-bit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cutoffScore8Bit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cutoffScore8Bit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p><p class="paragraph">Default: <code class="lang-kotlin">240</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html
new file mode 100644
index 00000000..7a3dd486
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dExp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="d-exp.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dExp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dExp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>d</span><wbr></wbr><span><span>Exp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html
new file mode 100644
index 00000000..50d2d9a4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dNew</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="d-new.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dNew/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dNew</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>d</span><wbr></wbr><span><span>New</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html
new file mode 100644
index 00000000..0df62b15
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dbType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="db-type.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dbType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dbType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>db</span><wbr></wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-type.html">dbType</a><span class="token operator">: </span><a href="../-sequence-type/index.html">SequenceType</a></div><p class="paragraph">Type of sequences in database file (nucl/prot).</p><p class="paragraph">Flag: <code class="lang-kotlin">--dbtype</code></p><p class="paragraph">Default: <a href="../-sequence-type/-amino-acid/index.html">SequenceType.AminoAcid</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html
new file mode 100644
index 00000000..d5a502a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dequeBucketSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="deque-bucket-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dequeBucketSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dequeBucketSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p><p class="paragraph">Default: <code class="lang-kotlin">524288</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html
new file mode 100644
index 00000000..72d0239b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagFilterCov</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="diag-filter-cov.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagFilterCov/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagFilterCov</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html
new file mode 100644
index 00000000..2eb65470
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagFilterID</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="diag-filter-i-d.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagFilterID/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagFilterID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html
new file mode 100644
index 00000000..22deb53d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagMinEstimate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="diag-min-estimate.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagMinEstimate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagMinEstimate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p><p class="paragraph">Default: <code class="lang-kotlin">17</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html
new file mode 100644
index 00000000..859a92ba
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extYield</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ext-yield.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/extYield/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">extYield</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ext</span><wbr></wbr><span><span>Yield</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html
new file mode 100644
index 00000000..fc04e21d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="family-cap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/familyCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">familyCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr></wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html
new file mode 100644
index 00000000..b1c300c4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyCountsFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="family-counts-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/familyCountsFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">familyCountsFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html
new file mode 100644
index 00000000..8f6cce4e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fastTsv</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="fast-tsv.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fastTsv/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fastTsv</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html
new file mode 100644
index 00000000..3a45efcd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="fetch-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>fetch</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Trace point fetch size.</p><p class="paragraph">Flag: <code class="lang-kotlin">--fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">4096u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html
new file mode 100644
index 00000000..3da736ec
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>file1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="file1.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/file1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">file1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>file1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html
new file mode 100644
index 00000000..b4145f3b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>file2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="file2.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/file2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">file2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>file2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html
new file mode 100644
index 00000000..138b9fe0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="freq-threshold.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/freqThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">freqThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html
new file mode 100644
index 00000000..7d9991b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fullSwLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="full-sw-len.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fullSwLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fullSwLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html
new file mode 100644
index 00000000..eb4115a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterDiagBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gapped-filter-diag-bit-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterDiagBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterDiagBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p><p class="paragraph">Default: <code class="lang-kotlin">12.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html
new file mode 100644
index 00000000..663042e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterEValue1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gapped-filter-e-value1.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterEValue1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterEValue1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html
new file mode 100644
index 00000000..af449a6a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="gapped-filter-window.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">200</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html
new file mode 100644
index 00000000..9fb93b6d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>graphAlgo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="graph-algo.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/graphAlgo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">graphAlgo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>graph</span><wbr></wbr><span><span>Algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../-graph-algorithm/index.html">GraphAlgorithm</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p><p class="paragraph">Default: <a href="../-graph-algorithm/-greedy-vortex-cover/index.html">GraphAlgorithm.GreedyVortexCover</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html
new file mode 100644
index 00000000..663ff261
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hammingExt</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="hamming-ext.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hammingExt/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hammingExt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html
new file mode 100644
index 00000000..857db89c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hardMasked</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="hard-masked.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hardMasked/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hardMasked</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hard</span><wbr></wbr><span><span>Masked</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html
new file mode 100644
index 00000000..5db9e17d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hashJoinSwap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="hash-join-swap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hashJoinSwap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hashJoinSwap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html
new file mode 100644
index 00000000..f4c515d8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idLeft</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="id-left.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idLeft/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idLeft</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr></wbr><span><span>Left</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html
new file mode 100644
index 00000000..79cfcdfe
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idN</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="id-n.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idN/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr></wbr><span><span>N</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html
new file mode 100644
index 00000000..ce309f38
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idRight</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="id-right.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idRight/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idRight</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr></wbr><span><span>Right</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html
new file mode 100644
index 00000000..cb9114bb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html
@@ -0,0 +1,2569 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HiddenOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">HiddenOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hidden</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">HiddenOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="add-self-aln.html"><span>add</span><wbr></wbr><span>Self</span><wbr></wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aln-out.html"><span>aln</span><wbr></wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchored-swipe.html"><span>anchored</span><wbr></wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchor-score.html"><span>anchor</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchor-window.html"><span>anchor</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="approx-backtrace.html"><span>approx</span><wbr></wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="band-bin.html"><span>band</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-cutoff.html"><span>b</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-match.html"><span>b</span><wbr></wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-mismatch.html"><span>b</span><wbr></wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bootstrap-block.html"><span>bootstrap</span><wbr></wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-angle.html"><span>cbs</span><wbr></wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-err-tolerance.html"><span>cbs</span><wbr></wbr><span>Err</span><wbr></wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-it-limit.html"><span>cbs</span><wbr></wbr><span>It</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-matrix-scale.html"><span>cbs</span><wbr></wbr><span>Matrix</span><wbr></wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-window.html"><span>cbs</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="centroid-factor.html"><span>centroid</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-len-cap.html"><span>chaining</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-max-gap.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-max-nodes.html"><span>chaining</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-min-nodes.html"><span>chaining</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-range-cover.html"><span>chaining</span><wbr></wbr><span>Range</span><wbr></wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr></wbr><span>Stacked</span><wbr></wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chunk-size-multiplier.html"><span>chunk</span><wbr></wbr><span>Size</span><wbr></wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="classic-band.html"><span>classic</span><wbr></wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-algo.html"><span>cluster</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-graph-file.html"><span>cluster</span><wbr></wbr><span>Graph</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-restart.html"><span>cluster</span><wbr></wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-similarity.html"><span>cluster</span><wbr></wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-threshold.html"><span>cluster</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="col-bin.html"><span>col</span><wbr></wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cutoff-score8-bit.html"><span>cutoff</span><wbr></wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="db-type.html"><span>db</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-type.html">dbType</a><span class="token operator">: </span><a href="../-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="deque-bucket-size.html"><span>deque</span><wbr></wbr><span>Bucket</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="d-exp.html"><span>d</span><wbr></wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-filter-cov.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-filter-i-d.html"><span>diag</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-min-estimate.html"><span>diag</span><wbr></wbr><span>Min</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="d-new.html"><span>d</span><wbr></wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ext-yield.html"><span>ext</span><wbr></wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-cap.html"><span>family</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-counts-file.html"><span>family</span><wbr></wbr><span>Counts</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fast-tsv.html"><span>fast</span><wbr></wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fetch-size.html"><span>fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-threshold.html"><span>freq</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="full-sw-len.html"><span>full</span><wbr></wbr><span>Sw</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-diag-bit-score.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span>Diag</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-e-value1.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-window.html"><span>gapped</span><wbr></wbr><span>Filter</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="graph-algo.html"><span>graph</span><wbr></wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hamming-ext.html"><span>hamming</span><wbr></wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hard-masked.html"><span>hard</span><wbr></wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hash-join-swap.html"><span>hash</span><wbr></wbr><span>Join</span><wbr></wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-left.html"><span>id</span><wbr></wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-n.html"><span>id</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-right.html"><span>id</span><wbr></wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-h-t-factor.html"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-split-key-len.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-split-size.html"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="left-most-interval.html"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="length-ratio-threshold.html"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="load-balancing.html"><span>load</span><wbr></wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-extend.html"><span>log</span><wbr></wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-query.html"><span>log</span><wbr></wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-subject.html"><span>log</span><wbr></wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="map-any.html"><span>map</span><wbr></wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-cells.html"><span>max</span><wbr></wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="maximum-seed-frequency.html"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-indirection.html"><span>max</span><wbr></wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-motif-len.html"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-swipe-dp.html"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-chunk-size.html"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-expansion.html"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-inflation.html"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-max-iterations.html"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-non-symmetric.html"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-sparsity-switch.html"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-stats.html"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="memory-intervals.html"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-band-overlap.html"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimizer-window.html"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-len-ratio.html"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-realign-overhang.html"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-task-trace-pts.html"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="motif-mask-file.html"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="narrow-band-cov.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="narrow-band-factor.html"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="neighborhood-score.html"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no8-bit-extension.html"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-chaining-merge-h-s-ps.html"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-dict.html"><span>no</span><wbr></wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-forward-fp.html"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-log-file.html"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reextend.html"><span>no</span><wbr></wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-ref-masking.html"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reorder.html"><span>no</span><wbr></wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-swipe-realign.html"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="oid-list.html"><span>oid</span><wbr></wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-fp.html"><span>output</span><wbr></wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-hits.html"><span>output</span><wbr></wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="p-align.html"><span>p</span><wbr></wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="path-cutoff.html"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="p-best.html"><span>p</span><wbr></wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="pipeline-short.html"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="prefix-scan.html"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-count.html"><span>query</span><wbr></wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-match-distance-threshold.html"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-memory.html"><span>query</span><wbr></wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="radix-bits.html"><span>radix</span><wbr></wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="radix-cluster-buffered.html"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="rank-factor.html"><span>rank</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ranking-cutoff-bit-score.html"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ranking-score-drop-factor.html"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-max.html"><span>reassign</span><wbr></wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-overlap.html"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-ratio.html"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="relaxed-e-value-factor.html"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="score-estimate-factor.html"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="score-ratio.html"><span>score</span><wbr></wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-hit-density.html"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-weight.html"><span>seed</span><wbr></wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-query-max-len.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-query-ungapped-bit-score.html"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-seq-i-ds.html"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="simple-freq.html"><span>simple</span><wbr></wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sketch-size.html"><span>sketch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sort-join.html"><span>sort</span><wbr></wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="space-penalty.html"><span>space</span><wbr></wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="store-query-quality.html"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="strict-g-v-c.html"><span>strict</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe-chunk-size.html"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe-task-size.html"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-max-repeat-offset.html"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-ungapped.html"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-bias.html"><span>target</span><wbr></wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-fetch-size.html"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-hard-cap.html"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-parallel-verbosity.html"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tile-size.html"><span>tile</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="trace-pt-fetch-size.html"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="transcript-len-estimate.html"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tsv-read-size.html"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="type.html">type</a><span class="token operator">: </span><a href="../-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-e-value.html"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-e-value-short.html"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-window.html"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-dist.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-edge-limit.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-input.html"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="use-dataset-field.html"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="use-smith-waterman.html"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="weighted-g-v-c.html"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html
new file mode 100644
index 00000000..d75f9ff2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinHTFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="join-h-t-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinHTFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinHTFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr></wbr><span><span>HTFactor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html
new file mode 100644
index 00000000..0f5c80ac
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinSplitKeyLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="join-split-key-len.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinSplitKeyLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinSplitKeyLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span>Key</span><wbr></wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">17u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html
new file mode 100644
index 00000000..24bc5c9b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinSplitSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="join-split-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinSplitSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinSplitSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr></wbr><span>Split</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">100000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html
new file mode 100644
index 00000000..85a7ea68
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="key2.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/key2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">key2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html
new file mode 100644
index 00000000..c0fb3be1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>leftMostInterval</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="left-most-interval.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/leftMostInterval/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">leftMostInterval</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>left</span><wbr></wbr><span>Most</span><wbr></wbr><span><span>Interval</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p><p class="paragraph">Default: <code class="lang-kotlin">32</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html
new file mode 100644
index 00000000..eddd394e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>lengthRatioThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="length-ratio-threshold.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/lengthRatioThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">lengthRatioThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>length</span><wbr></wbr><span>Ratio</span><wbr></wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html
new file mode 100644
index 00000000..d88879c8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>loadBalancing</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="load-balancing.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/loadBalancing/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">loadBalancing</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>load</span><wbr></wbr><span><span>Balancing</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html
new file mode 100644
index 00000000..e0a090af
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logExtend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="log-extend.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logExtend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logExtend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr></wbr><span><span>Extend</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html
new file mode 100644
index 00000000..fb7d9987
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logQuery</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="log-query.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logQuery/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logQuery</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr></wbr><span><span>Query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html
new file mode 100644
index 00000000..bc812bb0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logSubject</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="log-subject.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logSubject/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr></wbr><span><span>Subject</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html
new file mode 100644
index 00000000..792563f5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mapAny</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="map-any.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mapAny/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mapAny</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>map</span><wbr></wbr><span><span>Any</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html
new file mode 100644
index 00000000..d8583866
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxCells</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-cells.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxCells/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxCells</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span><span>Cells</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p><p class="paragraph">Default: <code class="lang-kotlin">10000000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html
new file mode 100644
index 00000000..047ab474
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxIndirection</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-indirection.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxIndirection/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxIndirection</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span><span>Indirection</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html
new file mode 100644
index 00000000..fb66b9bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxMotifLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-motif-len.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxMotifLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxMotifLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span>Motif</span><wbr></wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">30</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html
new file mode 100644
index 00000000..4d6df4ed
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxSwipeDp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="max-swipe-dp.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxSwipeDp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxSwipeDp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Dp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p><p class="paragraph">Default: <code class="lang-kotlin">1000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html
new file mode 100644
index 00000000..5bd583af
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maximumSeedFrequency</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="maximum-seed-frequency.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maximumSeedFrequency/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maximumSeedFrequency</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>maximum</span><wbr></wbr><span>Seed</span><wbr></wbr><span><span>Frequency</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Maximum seed frequency.</p><p class="paragraph">Flag: <code class="lang-kotlin">--seed-freq</code></p><p class="paragraph">Default = <code class="lang-kotlin">-15.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html
new file mode 100644
index 00000000..13d47596
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-chunk-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL chunk size per thread.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-chunk-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html
new file mode 100644
index 00000000..0d9ec101
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclExpansion</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-expansion.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclExpansion/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclExpansion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span><span>Expansion</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL expansion coefficient.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-expansion</code></p><p class="paragraph">Default: <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html
new file mode 100644
index 00000000..e15b143d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclInflation</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-inflation.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclInflation/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclInflation</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span><span>Inflation</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">MCL inflation coefficient.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-inflation</code></p><p class="paragraph">Default: <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html
new file mode 100644
index 00000000..fd223984
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclMaxIterations</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-max-iterations.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclMaxIterations/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclMaxIterations</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Iterations</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL maximum iterations.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-max-iterations</code></p><p class="paragraph">Default: <code class="lang-kotlin">100</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html
new file mode 100644
index 00000000..df2e6eba
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclNonSymmetric</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-non-symmetric.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclNonSymmetric/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclNonSymmetric</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span>Non</span><wbr></wbr><span><span>Symmetric</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-nonsymmetric</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html
new file mode 100644
index 00000000..bdb2c91b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclSparsitySwitch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-sparsity-switch.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclSparsitySwitch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclSparsitySwitch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span>Sparsity</span><wbr></wbr><span><span>Switch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">MCL switch to sparse matrix computation.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-sparsity-switch</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html
new file mode 100644
index 00000000..fbc5e1ff
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="mcl-stats.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclStats/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr></wbr><span><span>Stats</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Some stats about the connected components in MCL.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-stats</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html
new file mode 100644
index 00000000..daa487db
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memoryIntervals</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="memory-intervals.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/memoryIntervals/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">memoryIntervals</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>memory</span><wbr></wbr><span><span>Intervals</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p><p class="paragraph">Default: <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html
new file mode 100644
index 00000000..e604fa99
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minBandOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-band-overlap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minBandOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minBandOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html
new file mode 100644
index 00000000..f817ab03
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minLenRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-len-ratio.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minLenRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minLenRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html
new file mode 100644
index 00000000..0ac64a5a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minRealignOverhang</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-realign-overhang.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minRealignOverhang/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minRealignOverhang</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span>Realign</span><wbr></wbr><span><span>Overhang</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p><p class="paragraph">Default: <code class="lang-kotlin">30</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html
new file mode 100644
index 00000000..164bf8f8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minTaskTracePts</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="min-task-trace-pts.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minTaskTracePts/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minTaskTracePts</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr></wbr><span>Task</span><wbr></wbr><span>Trace</span><wbr></wbr><span><span>Pts</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p><p class="paragraph">Default: <code class="lang-kotlin">1024</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html
new file mode 100644
index 00000000..9adbc9f6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimizerWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="minimizer-window.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minimizerWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minimizerWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimizer</span><wbr></wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html
new file mode 100644
index 00000000..c463439e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>motifMaskFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="motif-mask-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/motifMaskFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">motifMaskFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>motif</span><wbr></wbr><span>Mask</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--motif-mask-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html
new file mode 100644
index 00000000..25275d0b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>narrowBandCov</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="narrow-band-cov.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/narrowBandCov/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">narrowBandCov</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Cov</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html
new file mode 100644
index 00000000..418e0ac9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>narrowBandFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="narrow-band-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/narrowBandFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">narrowBandFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>narrow</span><wbr></wbr><span>Band</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html
new file mode 100644
index 00000000..62281f41
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>neighborhoodScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="neighborhood-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/neighborhoodScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">neighborhoodScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>neighborhood</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html
new file mode 100644
index 00000000..0fe28140
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>neighbors</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="neighbors.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/neighbors/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">neighbors</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>neighbors</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--neighbors</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html
new file mode 100644
index 00000000..28867fc3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noChainingMergeHSPs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-chaining-merge-h-s-ps.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noChainingMergeHSPs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noChainingMergeHSPs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Chaining</span><wbr></wbr><span>Merge</span><wbr></wbr><span><span>HSPs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html
new file mode 100644
index 00000000..0e322818
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noDict</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-dict.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noDict/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noDict</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Dict</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html
new file mode 100644
index 00000000..e249eab0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noForwardFp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-forward-fp.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noForwardFp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noForwardFp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Forward</span><wbr></wbr><span><span>Fp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html
new file mode 100644
index 00000000..5f21d3db
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noLogFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-log-file.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noLogFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noLogFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Log</span><wbr></wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html
new file mode 100644
index 00000000..e25156df
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReextend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-reextend.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noReextend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noReextend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Reextend</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html
new file mode 100644
index 00000000..511aeb1f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noRefMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-ref-masking.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noRefMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noRefMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Ref</span><wbr></wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html
new file mode 100644
index 00000000..2059111a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReorder</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-reorder.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noReorder/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noReorder</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span><span>Reorder</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html
new file mode 100644
index 00000000..60bd516a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noSwipeRealign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no-swipe-realign.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noSwipeRealign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noSwipeRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr></wbr><span>Swipe</span><wbr></wbr><span><span>Realign</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html
new file mode 100644
index 00000000..72b41eae
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>no8BitExtension</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="no8-bit-extension.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/no8BitExtension/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">no8BitExtension</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no8Bit</span><wbr></wbr><span><span>Extension</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html
new file mode 100644
index 00000000..f35c4e80
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>oidList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="oid-list.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/oidList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">oidList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>oid</span><wbr></wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html
new file mode 100644
index 00000000..97ea0c1f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="output-fp.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/outputFp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">outputFp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr></wbr><span><span>Fp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html
new file mode 100644
index 00000000..31784476
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputHits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="output-hits.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/outputHits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">outputHits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr></wbr><span><span>Hits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html
new file mode 100644
index 00000000..906b7ea5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pAlign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="p-align.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pAlign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pAlign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>p</span><wbr></wbr><span><span>Align</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html
new file mode 100644
index 00000000..5c8f91e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pBest</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="p-best.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pBest/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pBest</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>p</span><wbr></wbr><span><span>Best</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.05</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html
new file mode 100644
index 00000000..ebbae3eb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pathCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="path-cutoff.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pathCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pathCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>path</span><wbr></wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.92</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html
new file mode 100644
index 00000000..11f1291b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pipelineShort</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="pipeline-short.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pipelineShort/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pipelineShort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>pipeline</span><wbr></wbr><span><span>Short</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html
new file mode 100644
index 00000000..8dc86c9e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>prefixScan</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="prefix-scan.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/prefixScan/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">prefixScan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>prefix</span><wbr></wbr><span><span>Scan</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html
new file mode 100644
index 00000000..cb0d223a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryCount</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-count.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryCount/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryCount</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span><span>Count</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p><p class="paragraph">Default: <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html
new file mode 100644
index 00000000..c6083ef7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryMatchDistanceThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-match-distance-threshold.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryMatchDistanceThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryMatchDistanceThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span>Match</span><wbr></wbr><span>Distance</span><wbr></wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html
new file mode 100644
index 00000000..f7da5e91
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryMemory</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="query-memory.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryMemory/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryMemory</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr></wbr><span><span>Memory</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html
new file mode 100644
index 00000000..86a4c2d8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>radixBits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="radix-bits.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/radixBits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">radixBits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>radix</span><wbr></wbr><span><span>Bits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p><p class="paragraph">Default: <code class="lang-kotlin">8u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html
new file mode 100644
index 00000000..0a70661d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>radixClusterBuffered</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="radix-cluster-buffered.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/radixClusterBuffered/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">radixClusterBuffered</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>radix</span><wbr></wbr><span>Cluster</span><wbr></wbr><span><span>Buffered</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html
new file mode 100644
index 00000000..4ff04be5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="rank-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>rank</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html
new file mode 100644
index 00000000..94b569e4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankingCutoffBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ranking-cutoff-bit-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankingCutoffBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankingCutoffBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ranking</span><wbr></wbr><span>Cutoff</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p><p class="paragraph">Default: <code class="lang-kotlin">25.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html
new file mode 100644
index 00000000..c1dbe41e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankingScoreDropFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ranking-score-drop-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankingScoreDropFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankingScoreDropFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ranking</span><wbr></wbr><span>Score</span><wbr></wbr><span>Drop</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.95</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html
new file mode 100644
index 00000000..a95a3cc2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>raw</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="raw.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/raw/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">raw</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>raw</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html
new file mode 100644
index 00000000..1f69b908
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignMax</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="reassign-max.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignMax/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignMax</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr></wbr><span><span>Max</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html
new file mode 100644
index 00000000..16e1f487
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="reassign-overlap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr></wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html
new file mode 100644
index 00000000..bcc8979f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="reassign-ratio.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr></wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html
new file mode 100644
index 00000000..16325aeb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>relaxedEValueFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="relaxed-e-value-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/relaxedEValueFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">relaxedEValueFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>relaxed</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html
new file mode 100644
index 00000000..1624b28b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>resume</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="resume.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/resume/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">resume</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>resume</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--resume</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html
new file mode 100644
index 00000000..3980599f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reverse</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="reverse.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reverse/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reverse</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>reverse</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html
new file mode 100644
index 00000000..469a56ac
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rho</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="rho.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rho/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rho</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>rho</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.99</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html
new file mode 100644
index 00000000..529f8af6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>scoreEstimateFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="score-estimate-factor.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/scoreEstimateFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">scoreEstimateFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>score</span><wbr></wbr><span>Estimate</span><wbr></wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html
new file mode 100644
index 00000000..9f111170
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>scoreRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="score-ratio.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/scoreRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">scoreRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>score</span><wbr></wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html
new file mode 100644
index 00000000..e2a49ffa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedHitDensity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="seed-hit-density.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/seedHitDensity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">seedHitDensity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr></wbr><span>Hit</span><wbr></wbr><span><span>Density</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html
new file mode 100644
index 00000000..f8e4ad75
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedWeight</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="seed-weight.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/seedWeight/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">seedWeight</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr></wbr><span><span>Weight</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p><p class="paragraph">Default: <code class="lang-kotlin">7u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html
new file mode 100644
index 00000000..3dbab35d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>self</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="self.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/self/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">self</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>self</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html
new file mode 100644
index 00000000..dc1c4e60
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortQueryMaxLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="short-query-max-len.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortQueryMaxLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortQueryMaxLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Max</span><wbr></wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">60</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html
new file mode 100644
index 00000000..3276795e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortQueryUngappedBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="short-query-ungapped-bit-score.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortQueryUngappedBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortQueryUngappedBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr></wbr><span>Query</span><wbr></wbr><span>Ungapped</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p><p class="paragraph">Default: <code class="lang-kotlin">25.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html
new file mode 100644
index 00000000..552186b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="short-seq-i-ds.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr></wbr><span>Seq</span><wbr></wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html
new file mode 100644
index 00000000..b6e4526d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>simpleFreq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="simple-freq.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/simpleFreq/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">simpleFreq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>simple</span><wbr></wbr><span><span>Freq</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html
new file mode 100644
index 00000000..054651cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sketchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="sketch-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/sketchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">sketchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sketch</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html
new file mode 100644
index 00000000..c2aea592
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sortJoin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="sort-join.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/sortJoin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">sortJoin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sort</span><wbr></wbr><span><span>Join</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html
new file mode 100644
index 00000000..0244f7d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>spacePenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="space-penalty.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/spacePenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">spacePenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>space</span><wbr></wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html
new file mode 100644
index 00000000..50fd8f7d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>storeQueryQuality</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="store-query-quality.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/storeQueryQuality/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">storeQueryQuality</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>store</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Quality</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html
new file mode 100644
index 00000000..a417dae6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>strictGVC</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="strict-g-v-c.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/strictGVC/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">strictGVC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>strict</span><wbr></wbr><span><span>GVC</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html
new file mode 100644
index 00000000..a96de8dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>superblock</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="superblock.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/superblock/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">superblock</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>superblock</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p><p class="paragraph">Default: <code class="lang-kotlin">128</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html
new file mode 100644
index 00000000..e0aa6632
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipeChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="swipe-chunk-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/swipeChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">swipeChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>swipe</span><wbr></wbr><span>Chunk</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">256u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html
new file mode 100644
index 00000000..2627dc86
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipeTaskSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="swipe-task-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/swipeTaskSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">swipeTaskSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>swipe</span><wbr></wbr><span>Task</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">100000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html
new file mode 100644
index 00000000..ade1243f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanMaxRepeatOffset</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tantan-max-repeat-offset.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tantanMaxRepeatOffset/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tantanMaxRepeatOffset</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr></wbr><span>Max</span><wbr></wbr><span>Repeat</span><wbr></wbr><span><span>Offset</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Maximum tandem repeat period to consider (50)</p><p class="paragraph">Flag: <code class="lang-kotlin">--tantan-maxRepeatOffset</code> // TODO: the caps are in the diamond cli source, are flag strings case sensitive?</p><p class="paragraph">Default: <code class="lang-kotlin">15</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html
new file mode 100644
index 00000000..4c1966bf
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanUngapped</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tantan-ungapped.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tantanUngapped/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tantanUngapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr></wbr><span><span>Ungapped</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use tantan masking in ungapped mode</p><p class="paragraph">Flag: <code class="lang-kotlin">--tantan-ungapped</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html
new file mode 100644
index 00000000..d50146c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetBias</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="target-bias.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetBias/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetBias</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr></wbr><span><span>Bias</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html
new file mode 100644
index 00000000..2172e570
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetFetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="target-fetch-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetFetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetFetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of target sequences to fetch for seed extension.</p><p class="paragraph">Flag: <code class="lang-kotlin">--target-fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">4u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html
new file mode 100644
index 00000000..c785c3e6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetHardCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="target-hard-cap.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetHardCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetHardCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr></wbr><span>Hard</span><wbr></wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html
new file mode 100644
index 00000000..4324745e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetParallelVerbosity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="target-parallel-verbosity.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetParallelVerbosity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetParallelVerbosity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr></wbr><span>Parallel</span><wbr></wbr><span><span>Verbosity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html
new file mode 100644
index 00000000..ed5114c2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tileSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tile-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tileSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tileSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tile</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">1024</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html
new file mode 100644
index 00000000..9750658a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>timeout</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="timeout.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/timeout/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">timeout</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>timeout</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html
new file mode 100644
index 00000000..2a5c600a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tracePtFetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="trace-pt-fetch-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tracePtFetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tracePtFetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>trace</span><wbr></wbr><span>Pt</span><wbr></wbr><span>Fetch</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">10e9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html
new file mode 100644
index 00000000..bf9d2ce9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>transcriptLenEstimate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="transcript-len-estimate.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/transcriptLenEstimate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">transcriptLenEstimate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>transcript</span><wbr></wbr><span>Len</span><wbr></wbr><span><span>Estimate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html
new file mode 100644
index 00000000..93b91e99
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tree</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tree.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tree/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tree</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tree</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html
new file mode 100644
index 00000000..4f11c285
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tsvReadSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="tsv-read-size.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tsvReadSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tsvReadSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tsv</span><wbr></wbr><span>Read</span><wbr></wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">1073741824</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html
new file mode 100644
index 00000000..728e54af
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>type</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="type.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/type/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">type</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="type.html">type</a><span class="token operator">: </span><a href="../-benchmark-type/index.html">BenchmarkType</a></div><p class="paragraph">TODO: seems to only be used by benchmark?</p><p class="paragraph">Flag: <code class="lang-kotlin">--type</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html
new file mode 100644
index 00000000..b8f1ceb2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedEValueShort</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ungapped-e-value-short.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedEValueShort/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedEValueShort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr></wbr><span>EValue</span><wbr></wbr><span><span>Short</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html
new file mode 100644
index 00000000..ab61a04c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedEValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ungapped-e-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedEValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedEValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr></wbr><span><span>EValue</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html
new file mode 100644
index 00000000..a1cd2345
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="ungapped-window.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr></wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">48</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html
new file mode 100644
index 00000000..107cbaf9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaDist</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="up-gma-dist.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaDist/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaDist</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Dist</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../-distribution-type/index.html">DistributionType</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html
new file mode 100644
index 00000000..1262d4d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaEdgeLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="up-gma-edge-limit.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaEdgeLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaEdgeLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span>Edge</span><wbr></wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p><p class="paragraph">Default: <code class="lang-kotlin">10000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html
new file mode 100644
index 00000000..34b545f2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaInput</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="up-gma-input.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaInput/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaInput</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr></wbr><span>Gma</span><wbr></wbr><span><span>Input</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../-input-type/index.html">InputType</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html
new file mode 100644
index 00000000..3cdf99af
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>useDatasetField</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="use-dataset-field.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/useDatasetField/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">useDatasetField</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>use</span><wbr></wbr><span>Dataset</span><wbr></wbr><span><span>Field</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html
new file mode 100644
index 00000000..c9dc1177
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>useSmithWaterman</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="use-smith-waterman.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/useSmithWaterman/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">useSmithWaterman</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>use</span><wbr></wbr><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html
new file mode 100644
index 00000000..2146d136
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>weightedGVC</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="weighted-g-v-c.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/weightedGVC/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">weightedGVC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>weighted</span><wbr></wbr><span><span>GVC</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html
new file mode 100644
index 00000000..c007295a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Binary</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Binary///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Binary</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Binary</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Binary</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html
new file mode 100644
index 00000000..fd17189d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html
new file mode 100644
index 00000000..0eb118e9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html
new file mode 100644
index 00000000..a339ba52
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1920219818%2FFunctions%2F769193423" anchor-label="fromJson" id="1920219818%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1920219818%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-293279042%2FFunctions%2F769193423" anchor-label="fromString" id="-293279042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-293279042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html
new file mode 100644
index 00000000..028ef0b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Other</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Other///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Other</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Other</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Other</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html
new file mode 100644
index 00000000..fd75ef58
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html
new file mode 100644
index 00000000..c8156f18
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html
new file mode 100644
index 00000000..c3ceaa81
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>InputType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
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+    }
+    </script>
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+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
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+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">InputType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Input</span><wbr></wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">InputType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="330721838%2FClasslikes%2F769193423" anchor-label="Binary" id="330721838%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-binary/index.html">Binary</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="330721838%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-binary/index.html">Binary</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1569459925%2FClasslikes%2F769193423" anchor-label="Other" id="-1569459925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-other/index.html">Other</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1569459925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-other/index.html">Other</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="836929854%2FClasslikes%2F769193423" anchor-label="Companion" id="836929854%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="836929854%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1968555033%2FProperties%2F769193423" anchor-label="entries" id="-1968555033%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1968555033%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080739051%2FFunctions%2F769193423" anchor-label="valueOf" id="-2080739051%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080739051%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">InputType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-416508191%2FFunctions%2F769193423" anchor-label="values" id="-416508191%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-416508191%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html
new file mode 100644
index 00000000..ac12fdae
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html
new file mode 100644
index 00000000..7218ec64
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">InputType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html
new file mode 100644
index 00000000..2a4ed132
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html
new file mode 100644
index 00000000..491a41b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeg</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.BlastSeg///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">BlastSeg</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>Seg</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeg</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html
new file mode 100644
index 00000000..e6d5150b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html
new file mode 100644
index 00000000..07f1b1b7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html
new file mode 100644
index 00000000..76f86f58
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html
new file mode 100644
index 00000000..42f2ad89
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="644624285%2FFunctions%2F769193423" anchor-label="fromInt" id="644624285%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="644624285%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1392288437%2FFunctions%2F769193423" anchor-label="fromJson" id="1392288437%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1392288437%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="963969993%2FFunctions%2F769193423" anchor-label="fromString" id="963969993%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="963969993%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html
new file mode 100644
index 00000000..f2283cb2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html
new file mode 100644
index 00000000..2a5c0761
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Tantan</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Tantan///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">Tantan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Tantan</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Tantan</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html
new file mode 100644
index 00000000..13d92f4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alt</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="alt.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/alt/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">alt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>alt</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html
new file mode 100644
index 00000000..17b974ce
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html
new file mode 100644
index 00000000..0e34c369
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html
new file mode 100644
index 00000000..87fb4899
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html
@@ -0,0 +1,301 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MaskingMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">MaskingMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Masking</span><wbr></wbr><span><span>Mode</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">MaskingMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1283209360%2FClasslikes%2F769193423" anchor-label="None" id="-1283209360%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1283209360%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1745385880%2FClasslikes%2F769193423" anchor-label="Tantan" id="1745385880%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-tantan/index.html">Tantan</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1745385880%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-tantan/index.html">Tantan</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1472208203%2FClasslikes%2F769193423" anchor-label="BlastSeg" id="-1472208203%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seg/index.html">BlastSeg</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1472208203%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seg/index.html">BlastSeg</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-537046199%2FClasslikes%2F769193423" anchor-label="Companion" id="-537046199%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-537046199%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2088111282%2FProperties%2F769193423" anchor-label="entries" id="2088111282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2088111282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1656717866%2FFunctions%2F769193423" anchor-label="valueOf" id="1656717866%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1656717866%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1099825334%2FFunctions%2F769193423" anchor-label="values" id="1099825334%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1099825334%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html
new file mode 100644
index 00000000..8c9a66e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html
new file mode 100644
index 00000000..d01f77cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MaskingMode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html
new file mode 100644
index 00000000..ee6cd204
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html
new file mode 100644
index 00000000..8ccbed8b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html
new file mode 100644
index 00000000..5cce8d43
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..20d3bcce
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..ea7448b2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html
new file mode 100644
index 00000000..8a52e199
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-699511026%2FFunctions%2F769193423" anchor-label="fromInt" id="-699511026%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-699511026%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161552794%2FFunctions%2F769193423" anchor-label="fromJson" id="-161552794%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161552794%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="849611386%2FFunctions%2F769193423" anchor-label="fromString" id="849611386%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="849611386%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html
new file mode 100644
index 00000000..e77d611f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Motif</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Motif</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Motif</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Motif</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html
new file mode 100644
index 00000000..240fce64
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html
new file mode 100644
index 00000000..d34de1e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html
new file mode 100644
index 00000000..b970b85a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html
new file mode 100644
index 00000000..e463d0f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html
@@ -0,0 +1,271 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MotifMaskingAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">MotifMaskingAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Motif</span><wbr></wbr><span>Masking</span><wbr></wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">MotifMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-61373151%2FClasslikes%2F769193423" anchor-label="None" id="-61373151%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-61373151%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1624705358%2FClasslikes%2F769193423" anchor-label="Motif" id="1624705358%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif/index.html">Motif</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1624705358%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-motif/index.html">Motif</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="1129454842%2FClasslikes%2F769193423" anchor-label="Companion" id="1129454842%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1129454842%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1428393635%2FProperties%2F769193423" anchor-label="entries" id="1428393635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1428393635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="798388185%2FFunctions%2F769193423" anchor-label="valueOf" id="798388185%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="798388185%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1692402523%2FFunctions%2F769193423" anchor-label="values" id="-1692402523%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1692402523%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html
new file mode 100644
index 00000000..53366545
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html
new file mode 100644
index 00000000..308f7bb2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MotifMaskingAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html
new file mode 100644
index 00000000..03a4fb6a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html
new file mode 100644
index 00000000..d92d67c1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html
new file mode 100644
index 00000000..05dae5ce
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeLineage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="include-lineage.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer/includeLineage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptionContainer</a><span class="delimiter">/</span><span class="current">includeLineage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr></wbr><span><span>Lineage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include lineage in the taxonomic classification format.</p><p class="paragraph">Flag = <code class="lang-kotlin">--include-lineage</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html
new file mode 100644
index 00000000..e72973bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>OutputFormatOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">OutputFormatOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">OutputFormatOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-lineage.html"><span>include</span><wbr></wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-format.html"><span>output</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html
new file mode 100644
index 00000000..5a316534
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="output-format.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer/outputFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptionContainer</a><span class="delimiter">/</span><span class="current">outputFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr></wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html
new file mode 100644
index 00000000..6680ebcd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html
new file mode 100644
index 00000000..ec2b9947
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html
new file mode 100644
index 00000000..72d811f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1091380045%2FFunctions%2F769193423" anchor-label="fromJson" id="-1091380045%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1091380045%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1006118969%2FFunctions%2F769193423" anchor-label="fromString" id="-1006118969%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1006118969%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html
new file mode 100644
index 00000000..e2feaa4d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FASTA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.FASTA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">FASTA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>FASTA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FASTA</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html
new file mode 100644
index 00000000..3a6ff7cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FASTQ</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.FASTQ///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">FASTQ</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>FASTQ</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FASTQ</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html
new file mode 100644
index 00000000..414412a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html
new file mode 100644
index 00000000..c788e543
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html
new file mode 100644
index 00000000..fd87867d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
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+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">QueryFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">QueryFileFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-136291337%2FClasslikes%2F769193423" anchor-label="FASTA" id="-136291337%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-f-a-s-t-a/index.html">FASTA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136291337%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-f-a-s-t-a/index.html">FASTA</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="682631175%2FClasslikes%2F769193423" anchor-label="FASTQ" id="682631175%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-f-a-s-t-q/index.html">FASTQ</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="682631175%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-f-a-s-t-q/index.html">FASTQ</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="953860423%2FClasslikes%2F769193423" anchor-label="Companion" id="953860423%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="953860423%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="288547376%2FProperties%2F769193423" anchor-label="entries" id="288547376%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="288547376%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="325978476%2FFunctions%2F769193423" anchor-label="valueOf" id="325978476%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="325978476%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-482245768%2FFunctions%2F769193423" anchor-label="values" id="-482245768%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-482245768%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html
new file mode 100644
index 00000000..f44c2f24
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html
new file mode 100644
index 00000000..11080c26
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
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+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryFileFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html
new file mode 100644
index 00000000..dba69364
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
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+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
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+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html
new file mode 100644
index 00000000..d5f4e277
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Both</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
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+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    <div class="navigation-controls">
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Both///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Both</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Both</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Both</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html
new file mode 100644
index 00000000..d3a7e11f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html
new file mode 100644
index 00000000..2f3b5753
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html
new file mode 100644
index 00000000..4f930027
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-163878944%2FFunctions%2F769193423" anchor-label="fromJson" id="-163878944%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-163878944%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1590109708%2FFunctions%2F769193423" anchor-label="fromString" id="-1590109708%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1590109708%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html
new file mode 100644
index 00000000..134a9c56
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Minus</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Minus///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Minus</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Minus</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Minus</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html
new file mode 100644
index 00000000..71669e8a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Plus</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Plus///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Plus</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Plus</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Plus</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html
new file mode 100644
index 00000000..49c2de23
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html
new file mode 100644
index 00000000..ca63e52c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html
new file mode 100644
index 00000000..27703db7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html
@@ -0,0 +1,271 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryStrand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">QueryStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr></wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">QueryStrand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="1904403748%2FClasslikes%2F769193423" anchor-label="Both" id="1904403748%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-both/index.html">Both</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1904403748%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-both/index.html">Both</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1072014979%2FClasslikes%2F769193423" anchor-label="Plus" id="-1072014979%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-plus/index.html">Plus</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1072014979%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-plus/index.html">Plus</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480432107%2FClasslikes%2F769193423" anchor-label="Minus" id="-480432107%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-minus/index.html">Minus</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480432107%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-minus/index.html">Minus</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1893123468%2FClasslikes%2F769193423" anchor-label="Companion" id="-1893123468%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1893123468%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1429717661%2FProperties%2F769193423" anchor-label="entries" id="1429717661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1429717661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312554465%2FFunctions%2F769193423" anchor-label="valueOf" id="-1312554465%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312554465%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2048418155%2FFunctions%2F769193423" anchor-label="values" id="2048418155%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2048418155%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html
new file mode 100644
index 00000000..14bf9ed2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html
new file mode 100644
index 00000000..1467a134
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryStrand</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html
new file mode 100644
index 00000000..7a95fc9c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html
new file mode 100644
index 00000000..4d005f68
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM45</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM45///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM45</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM45</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM45</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html
new file mode 100644
index 00000000..f5a93a60
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM50</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM50///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM50</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM50</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM50</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html
new file mode 100644
index 00000000..46220ce9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM62</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM62///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM62</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM62</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM62</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html
new file mode 100644
index 00000000..ddc5267b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM80</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM80///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM80</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM80</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM80</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html
new file mode 100644
index 00000000..6883f30b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM90</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM90///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM90</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM90</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM90</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html
new file mode 100644
index 00000000..696c48c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html
new file mode 100644
index 00000000..ad5f6e58
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html
new file mode 100644
index 00000000..4edd4264
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-897104965%2FFunctions%2F769193423" anchor-label="fromJson" id="-897104965%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-897104965%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1265030863%2FFunctions%2F769193423" anchor-label="fromString" id="1265030863%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1265030863%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html
new file mode 100644
index 00000000..77f5da0e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM250</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM250///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM250</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM250</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM250</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html
new file mode 100644
index 00000000..02b44405
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM30</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM30///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM30</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM30</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM30</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html
new file mode 100644
index 00000000..70d0b76a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM70</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM70///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM70</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM70</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM70</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html
new file mode 100644
index 00000000..650eb092
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html
new file mode 100644
index 00000000..3fd1d69d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html
new file mode 100644
index 00000000..5d0c8d90
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html
@@ -0,0 +1,346 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ScoreMatrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ScoreMatrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Score</span><wbr></wbr><span><span>Matrix</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">ScoreMatrix</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="822794149%2FClasslikes%2F769193423" anchor-label="BLOSUM45" id="822794149%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m45/index.html">BLOSUM45</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="822794149%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m45/index.html">BLOSUM45</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1257702752%2FClasslikes%2F769193423" anchor-label="BLOSUM62" id="-1257702752%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m62/index.html">BLOSUM62</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1257702752%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m62/index.html">BLOSUM62</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-530811329%2FClasslikes%2F769193423" anchor-label="BLOSUM50" id="-530811329%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m50/index.html">BLOSUM50</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-530811329%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m50/index.html">BLOSUM50</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1407968804%2FClasslikes%2F769193423" anchor-label="BLOSUM80" id="-1407968804%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m80/index.html">BLOSUM80</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1407968804%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m80/index.html">BLOSUM80</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1700354629%2FClasslikes%2F769193423" anchor-label="BLOSUM90" id="-1700354629%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m90/index.html">BLOSUM90</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1700354629%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m90/index.html">BLOSUM90</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1940843823%2FClasslikes%2F769193423" anchor-label="PAM250" id="1940843823%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m250/index.html">PAM250</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1940843823%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m250/index.html">PAM250</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-934075549%2FClasslikes%2F769193423" anchor-label="PAM30" id="-934075549%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m30/index.html">PAM30</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-934075549%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m30/index.html">PAM30</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2103618849%2FClasslikes%2F769193423" anchor-label="PAM70" id="-2103618849%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m70/index.html">PAM70</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2103618849%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m70/index.html">PAM70</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="608983119%2FClasslikes%2F769193423" anchor-label="Companion" id="608983119%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="608983119%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-324101320%2FProperties%2F769193423" anchor-label="entries" id="-324101320%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-324101320%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1299529060%2FFunctions%2F769193423" anchor-label="valueOf" id="1299529060%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1299529060%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="744917360%2FFunctions%2F769193423" anchor-label="values" id="744917360%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="744917360%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html
new file mode 100644
index 00000000..9a6026cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html
new file mode 100644
index 00000000..b4f7b669
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ScoreMatrix</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html
new file mode 100644
index 00000000..0d45b7c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html
new file mode 100644
index 00000000..b6c59cbf
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html
new file mode 100644
index 00000000..c9cd124d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html
new file mode 100644
index 00000000..ff46e4f4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1765276303%2FFunctions%2F769193423" anchor-label="fromJson" id="1765276303%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1765276303%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1689400925%2FFunctions%2F769193423" anchor-label="fromString" id="-1689400925%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1689400925%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html
new file mode 100644
index 00000000..ea06040b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Default</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Default///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Default</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Default</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Default</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html
new file mode 100644
index 00000000..e980b340
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Fast</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Fast///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Fast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Fast</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Fast</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html
new file mode 100644
index 00000000..1dfb04cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Faster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Faster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Faster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Faster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Faster</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html
new file mode 100644
index 00000000..76b68dc7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MidSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.MidSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">MidSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Mid</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MidSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html
new file mode 100644
index 00000000..b18ff418
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MoreSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.MoreSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">MoreSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>More</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MoreSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html
new file mode 100644
index 00000000..6b7598b3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Sensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Sensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Sensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html
new file mode 100644
index 00000000..199e75dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Shapes30x10</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Shapes30x10///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Shapes30x10</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Shapes30x10</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Shapes30x10</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html
new file mode 100644
index 00000000..cd0dc7be
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UltraSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.UltraSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">UltraSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ultra</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">UltraSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html
new file mode 100644
index 00000000..b8105911
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>VerySensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.VerySensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">VerySensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Very</span><wbr></wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">VerySensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html
new file mode 100644
index 00000000..ff10d420
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html
new file mode 100644
index 00000000..75ec470a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html
new file mode 100644
index 00000000..cef0be59
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html
@@ -0,0 +1,361 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sensitivity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">Sensitivity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sensitivity</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">Sensitivity</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1750099237%2FClasslikes%2F769193423" anchor-label="Faster" id="-1750099237%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-faster/index.html">Faster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1750099237%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-faster/index.html">Faster</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-143121042%2FClasslikes%2F769193423" anchor-label="Fast" id="-143121042%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fast/index.html">Fast</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-143121042%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-fast/index.html">Fast</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-532299049%2FClasslikes%2F769193423" anchor-label="Default" id="-532299049%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-default/index.html">Default</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-532299049%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-default/index.html">Default</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991756608%2FClasslikes%2F769193423" anchor-label="MidSensitive" id="-1991756608%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mid-sensitive/index.html">MidSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991756608%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mid-sensitive/index.html">MidSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-927443778%2FClasslikes%2F769193423" anchor-label="Shapes30x10" id="-927443778%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-shapes30x10/index.html">Shapes30x10</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-927443778%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-shapes30x10/index.html">Shapes30x10</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="20435948%2FClasslikes%2F769193423" anchor-label="Sensitive" id="20435948%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sensitive/index.html">Sensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="20435948%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-sensitive/index.html">Sensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="394597847%2FClasslikes%2F769193423" anchor-label="MoreSensitive" id="394597847%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-more-sensitive/index.html">MoreSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="394597847%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-more-sensitive/index.html">MoreSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1382447914%2FClasslikes%2F769193423" anchor-label="VerySensitive" id="-1382447914%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-very-sensitive/index.html">VerySensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1382447914%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-very-sensitive/index.html">VerySensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="492618588%2FClasslikes%2F769193423" anchor-label="UltraSensitive" id="492618588%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ultra-sensitive/index.html">UltraSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="492618588%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ultra-sensitive/index.html">UltraSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="828213027%2FClasslikes%2F769193423" anchor-label="Companion" id="828213027%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="828213027%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-64655604%2FProperties%2F769193423" anchor-label="entries" id="-64655604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-64655604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1721254416%2FFunctions%2F769193423" anchor-label="valueOf" id="1721254416%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1721254416%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Sensitivity</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="60549916%2FFunctions%2F769193423" anchor-label="values" id="60549916%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="60549916%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html
new file mode 100644
index 00000000..eec5369b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html
new file mode 100644
index 00000000..320455c6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Sensitivity</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html
new file mode 100644
index 00000000..fa09f69f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html
new file mode 100644
index 00000000..092b621d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AminoAcid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.AminoAcid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">AminoAcid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Amino</span><wbr></wbr><span><span>Acid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AminoAcid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html
new file mode 100644
index 00000000..f47606f0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html
new file mode 100644
index 00000000..a8a15f29
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html
new file mode 100644
index 00000000..ccf1fba6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-953989739%2FFunctions%2F769193423" anchor-label="fromJson" id="-953989739%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-953989739%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-629258583%2FFunctions%2F769193423" anchor-label="fromString" id="-629258583%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-629258583%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html
new file mode 100644
index 00000000..864211e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Nucleotide</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Nucleotide///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">Nucleotide</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Nucleotide</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Nucleotide</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html
new file mode 100644
index 00000000..d129141c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html
new file mode 100644
index 00000000..eab362f7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html
new file mode 100644
index 00000000..4c020491
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html
@@ -0,0 +1,256 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SequenceType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">SequenceType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Sequence</span><wbr></wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">SequenceType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="252422507%2FClasslikes%2F769193423" anchor-label="AminoAcid" id="252422507%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-amino-acid/index.html">AminoAcid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="252422507%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-amino-acid/index.html">AminoAcid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="547174376%2FClasslikes%2F769193423" anchor-label="Nucleotide" id="547174376%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-nucleotide/index.html">Nucleotide</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="547174376%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-nucleotide/index.html">Nucleotide</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="600389161%2FClasslikes%2F769193423" anchor-label="Companion" id="600389161%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="600389161%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1839015826%2FProperties%2F769193423" anchor-label="entries" id="1839015826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1839015826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243068086%2FFunctions%2F769193423" anchor-label="valueOf" id="-243068086%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243068086%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1817703978%2FFunctions%2F769193423" anchor-label="values" id="-1817703978%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1817703978%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html
new file mode 100644
index 00000000..a946e280
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html
new file mode 100644
index 00000000..aae3f1a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SequenceType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html
new file mode 100644
index 00000000..1e67605e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html
new file mode 100644
index 00000000..1ec94fd3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..b53b0718
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..61a29afa
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html
new file mode 100644
index 00000000..c366d795
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="79881525%2FFunctions%2F769193423" anchor-label="fromInt" id="79881525%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="79881525%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-157319603%2FFunctions%2F769193423" anchor-label="fromJson" id="-157319603%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-157319603%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344067743%2FFunctions%2F769193423" anchor-label="fromString" id="-1344067743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344067743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html
new file mode 100644
index 00000000..ef3f234a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Motif</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Motif</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Motif</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Motif</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html
new file mode 100644
index 00000000..bb607594
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html
new file mode 100644
index 00000000..e96b16e3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Seg</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Seg///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Seg</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Seg</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Seg</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html
new file mode 100644
index 00000000..a76fb917
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html
@@ -0,0 +1,188 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Tantan</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Tantan///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Tantan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Tantan</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Tantan</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html
new file mode 100644
index 00000000..ba616ef1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html
new file mode 100644
index 00000000..d356afdb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html
new file mode 100644
index 00000000..8685077c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html
@@ -0,0 +1,316 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SoftMaskingAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">SoftMaskingAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Soft</span><wbr></wbr><span>Masking</span><wbr></wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">SoftMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="999822088%2FClasslikes%2F769193423" anchor-label="None" id="999822088%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="999822088%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010319152%2FClasslikes%2F769193423" anchor-label="Tantan" id="1010319152%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-tantan/index.html">Tantan</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010319152%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-tantan/index.html">Tantan</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1865273197%2FClasslikes%2F769193423" anchor-label="Seg" id="1865273197%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seg/index.html">Seg</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1865273197%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-seg/index.html">Seg</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="162019399%2FClasslikes%2F769193423" anchor-label="Motif" id="162019399%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif/index.html">Motif</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="162019399%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-motif/index.html">Motif</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="210681569%2FClasslikes%2F769193423" anchor-label="Companion" id="210681569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210681569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="891125322%2FProperties%2F769193423" anchor-label="entries" id="891125322%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="891125322%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="858220434%2FFunctions%2F769193423" anchor-label="valueOf" id="858220434%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="858220434%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739902434%2FFunctions%2F769193423" anchor-label="values" id="-739902434%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739902434%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html
new file mode 100644
index 00000000..8ed9f101
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="key.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/key/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">key</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html
new file mode 100644
index 00000000..1508339f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html
new file mode 100644
index 00000000..cadd44ed
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SoftMaskingAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html
new file mode 100644
index 00000000..adf04ffe
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html
new file mode 100644
index 00000000..e7d65636
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html
new file mode 100644
index 00000000..9cf551b0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlternativeFlatwormMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeFlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AlternativeFlatwormMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alternative</span><wbr></wbr><span>Flatworm</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlternativeFlatwormMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html
new file mode 100644
index 00000000..243a7fe6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlternativeYeastNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeYeastNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AlternativeYeastNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alternative</span><wbr></wbr><span>Yeast</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlternativeYeastNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html
new file mode 100644
index 00000000..6fa17f9e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ArchaealPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ArchaealPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ArchaealPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Archaeal</span><wbr></wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ArchaealPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html
new file mode 100644
index 00000000..59811815
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AscidianMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AscidianMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AscidianMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ascidian</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AscidianMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html
new file mode 100644
index 00000000..862fe112
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BacterialPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.BacterialPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">BacterialPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bacterial</span><wbr></wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BacterialPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html
new file mode 100644
index 00000000..653daf5f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CandidateDivisionSR1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CandidateDivisionSR1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CandidateDivisionSR1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Candidate</span><wbr></wbr><span>Division</span><wbr></wbr><span><span>SR1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CandidateDivisionSR1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html
new file mode 100644
index 00000000..558d19c1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ChlorophyceanMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ChlorophyceanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ChlorophyceanMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Chlorophycean</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ChlorophyceanMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html
new file mode 100644
index 00000000..2b90e1c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CiliateNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CiliateNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CiliateNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ciliate</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CiliateNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html
new file mode 100644
index 00000000..ce29d752
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CoelenterateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CoelenterateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CoelenterateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Coelenterate</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CoelenterateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html
new file mode 100644
index 00000000..d7f5b6e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-int.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html
new file mode 100644
index 00000000..5552cbee
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html
new file mode 100644
index 00000000..c9c2eab8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html
@@ -0,0 +1,124 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1101176051%2FFunctions%2F769193423" anchor-label="fromInt" id="1101176051%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr></wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1101176051%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1893100149%2FFunctions%2F769193423" anchor-label="fromJson" id="-1893100149%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1893100149%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html
new file mode 100644
index 00000000..84a72d6e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DasycladaceanNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.DasycladaceanNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">DasycladaceanNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Dasycladacean</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DasycladaceanNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html
new file mode 100644
index 00000000..dad2310b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EchinodermMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EchinodermMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">EchinodermMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Echinoderm</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EchinodermMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html
new file mode 100644
index 00000000..786ff1e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EuplotidNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EuplotidNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">EuplotidNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Euplotid</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EuplotidNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html
new file mode 100644
index 00000000..1a9f4e8b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FlatwormMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.FlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">FlatwormMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Flatworm</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FlatwormMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html
new file mode 100644
index 00000000..5def62b0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Gracilibacteria</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Gracilibacteria///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Gracilibacteria</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Gracilibacteria</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Gracilibacteria</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html
new file mode 100644
index 00000000..102f03e3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HexamitaNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.HexamitaNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">HexamitaNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hexamita</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HexamitaNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html
new file mode 100644
index 00000000..ad35ec53
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>InvertebrateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.InvertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">InvertebrateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Invertebrate</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">InvertebrateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html
new file mode 100644
index 00000000..d491e4e7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MoldMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.MoldMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">MoldMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Mold</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MoldMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html
new file mode 100644
index 00000000..56f87fdf
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mycoplasma</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Mycoplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Mycoplasma</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mycoplasma</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Mycoplasma</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html
new file mode 100644
index 00000000..afe0cd2c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PachysolenTannophilusNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PachysolenTannophilusNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">PachysolenTannophilusNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Pachysolen</span><wbr></wbr><span>Tannophilus</span><wbr></wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PachysolenTannophilusNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html
new file mode 100644
index 00000000..48d8814d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PlantPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
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+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PlantPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">PlantPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Plant</span><wbr></wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PlantPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html
new file mode 100644
index 00000000..2559d7d5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ProtozoanMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ProtozoanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ProtozoanMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Protozoan</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ProtozoanMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html
new file mode 100644
index 00000000..7b58304e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RhabdopleuridaeMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.RhabdopleuridaeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">RhabdopleuridaeMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Rhabdopleuridae</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RhabdopleuridaeMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html
new file mode 100644
index 00000000..1a496860
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ScenedesmusObliquusMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ScenedesmusObliquusMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ScenedesmusObliquusMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Scenedesmus</span><wbr></wbr><span>Obliquus</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ScenedesmusObliquusMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html
new file mode 100644
index 00000000..c7fdeeed
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Spiroplasma</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Spiroplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Spiroplasma</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Spiroplasma</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Spiroplasma</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html
new file mode 100644
index 00000000..8cc36b81
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Standard</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Standard///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Standard</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Standard</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Standard</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html
new file mode 100644
index 00000000..c9602a4d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ThraustochytriumMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ThraustochytriumMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ThraustochytriumMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Thraustochytrium</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ThraustochytriumMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html
new file mode 100644
index 00000000..208873c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TrematodeMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.TrematodeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">TrematodeMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Trematode</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">TrematodeMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html
new file mode 100644
index 00000000..0b96d951
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>VertebrateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.VertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">VertebrateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Vertebrate</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">VertebrateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html
new file mode 100644
index 00000000..b217be61
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html
@@ -0,0 +1,173 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>YeastMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.YeastMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">YeastMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Yeast</span><wbr></wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">YeastMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html
new file mode 100644
index 00000000..34191063
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html
new file mode 100644
index 00000000..f238f54b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>code</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="code.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/code/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">code</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>code</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html
new file mode 100644
index 00000000..517bb2cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html
new file mode 100644
index 00000000..3454798f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html
@@ -0,0 +1,676 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TranslatorGenCode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">TranslatorGenCode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Translator</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">TranslatorGenCode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-596220405%2FClasslikes%2F769193423" anchor-label="Standard" id="-596220405%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-standard/index.html">Standard</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-596220405%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-standard/index.html">Standard</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="342634391%2FClasslikes%2F769193423" anchor-label="VertebrateMitochondrial" id="342634391%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-vertebrate-mitochondrial/index.html">VertebrateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="342634391%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-vertebrate-mitochondrial/index.html">VertebrateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="925507011%2FClasslikes%2F769193423" anchor-label="YeastMitochondrial" id="925507011%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-yeast-mitochondrial/index.html">YeastMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="925507011%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-yeast-mitochondrial/index.html">YeastMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="559150443%2FClasslikes%2F769193423" anchor-label="MoldMitochondrial" id="559150443%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mold-mitochondrial/index.html">MoldMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="559150443%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mold-mitochondrial/index.html">MoldMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653687761%2FClasslikes%2F769193423" anchor-label="ProtozoanMitochondrial" id="-653687761%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-protozoan-mitochondrial/index.html">ProtozoanMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653687761%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-protozoan-mitochondrial/index.html">ProtozoanMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-745391016%2FClasslikes%2F769193423" anchor-label="CoelenterateMitochondrial" id="-745391016%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-coelenterate-mitochondrial/index.html">CoelenterateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-745391016%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-coelenterate-mitochondrial/index.html">CoelenterateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-305416600%2FClasslikes%2F769193423" anchor-label="Mycoplasma" id="-305416600%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mycoplasma/index.html">Mycoplasma</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-305416600%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mycoplasma/index.html">Mycoplasma</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1011705083%2FClasslikes%2F769193423" anchor-label="Spiroplasma" id="-1011705083%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-spiroplasma/index.html">Spiroplasma</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1011705083%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-spiroplasma/index.html">Spiroplasma</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-37449198%2FClasslikes%2F769193423" anchor-label="InvertebrateMitochondrial" id="-37449198%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-invertebrate-mitochondrial/index.html">InvertebrateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-37449198%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-invertebrate-mitochondrial/index.html">InvertebrateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1339780325%2FClasslikes%2F769193423" anchor-label="CiliateNuclear" id="1339780325%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ciliate-nuclear/index.html">CiliateNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1339780325%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ciliate-nuclear/index.html">CiliateNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2035277037%2FClasslikes%2F769193423" anchor-label="DasycladaceanNuclear" id="-2035277037%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-dasycladacean-nuclear/index.html">DasycladaceanNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2035277037%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-dasycladacean-nuclear/index.html">DasycladaceanNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="792315601%2FClasslikes%2F769193423" anchor-label="HexamitaNuclear" id="792315601%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hexamita-nuclear/index.html">HexamitaNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="792315601%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hexamita-nuclear/index.html">HexamitaNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-878701655%2FClasslikes%2F769193423" anchor-label="EchinodermMitochondrial" id="-878701655%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-echinoderm-mitochondrial/index.html">EchinodermMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-878701655%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-echinoderm-mitochondrial/index.html">EchinodermMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-370122823%2FClasslikes%2F769193423" anchor-label="FlatwormMitochondrial" id="-370122823%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-flatworm-mitochondrial/index.html">FlatwormMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-370122823%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-flatworm-mitochondrial/index.html">FlatwormMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="552855860%2FClasslikes%2F769193423" anchor-label="EuplotidNuclear" id="552855860%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-euplotid-nuclear/index.html">EuplotidNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="552855860%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-euplotid-nuclear/index.html">EuplotidNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-287753320%2FClasslikes%2F769193423" anchor-label="BacterialPlastid" id="-287753320%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bacterial-plastid/index.html">BacterialPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-287753320%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bacterial-plastid/index.html">BacterialPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1834196202%2FClasslikes%2F769193423" anchor-label="ArchaealPlastid" id="-1834196202%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-archaeal-plastid/index.html">ArchaealPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1834196202%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-archaeal-plastid/index.html">ArchaealPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1926376892%2FClasslikes%2F769193423" anchor-label="PlantPlastid" id="-1926376892%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-plant-plastid/index.html">PlantPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1926376892%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-plant-plastid/index.html">PlantPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1749043337%2FClasslikes%2F769193423" anchor-label="AlternativeYeastNuclear" id="-1749043337%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alternative-yeast-nuclear/index.html">AlternativeYeastNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1749043337%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-alternative-yeast-nuclear/index.html">AlternativeYeastNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2102570117%2FClasslikes%2F769193423" anchor-label="AscidianMitochondrial" id="-2102570117%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ascidian-mitochondrial/index.html">AscidianMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2102570117%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ascidian-mitochondrial/index.html">AscidianMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-427621504%2FClasslikes%2F769193423" anchor-label="AlternativeFlatwormMitochondrial" id="-427621504%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alternative-flatworm-mitochondrial/index.html">AlternativeFlatwormMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-427621504%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-alternative-flatworm-mitochondrial/index.html">AlternativeFlatwormMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1353218062%2FClasslikes%2F769193423" anchor-label="ChlorophyceanMitochondrial" id="1353218062%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-chlorophycean-mitochondrial/index.html">ChlorophyceanMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1353218062%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-chlorophycean-mitochondrial/index.html">ChlorophyceanMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-493458974%2FClasslikes%2F769193423" anchor-label="TrematodeMitochondrial" id="-493458974%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-trematode-mitochondrial/index.html">TrematodeMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-493458974%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-trematode-mitochondrial/index.html">TrematodeMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1534719522%2FClasslikes%2F769193423" anchor-label="ScenedesmusObliquusMitochondrial" id="1534719522%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-scenedesmus-obliquus-mitochondrial/index.html">ScenedesmusObliquusMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1534719522%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-scenedesmus-obliquus-mitochondrial/index.html">ScenedesmusObliquusMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1166709414%2FClasslikes%2F769193423" anchor-label="ThraustochytriumMitochondrial" id="-1166709414%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-thraustochytrium-mitochondrial/index.html">ThraustochytriumMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1166709414%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-thraustochytrium-mitochondrial/index.html">ThraustochytriumMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1349300918%2FClasslikes%2F769193423" anchor-label="RhabdopleuridaeMitochondrial" id="1349300918%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-rhabdopleuridae-mitochondrial/index.html">RhabdopleuridaeMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1349300918%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-rhabdopleuridae-mitochondrial/index.html">RhabdopleuridaeMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="180518384%2FClasslikes%2F769193423" anchor-label="CandidateDivisionSR1" id="180518384%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-candidate-division-s-r1/index.html">CandidateDivisionSR1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180518384%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-candidate-division-s-r1/index.html">CandidateDivisionSR1</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1295548920%2FClasslikes%2F769193423" anchor-label="Gracilibacteria" id="-1295548920%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-gracilibacteria/index.html">Gracilibacteria</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1295548920%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-gracilibacteria/index.html">Gracilibacteria</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491450705%2FClasslikes%2F769193423" anchor-label="PachysolenTannophilusNuclear" id="-1491450705%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-pachysolen-tannophilus-nuclear/index.html">PachysolenTannophilusNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491450705%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-pachysolen-tannophilus-nuclear/index.html">PachysolenTannophilusNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="883395103%2FClasslikes%2F769193423" anchor-label="Companion" id="883395103%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="883395103%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="248250632%2FProperties%2F769193423" anchor-label="entries" id="248250632%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="248250632%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1194838420%2FFunctions%2F769193423" anchor-label="valueOf" id="1194838420%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1194838420%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1591924320%2FFunctions%2F769193423" anchor-label="values" id="-1591924320%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1591924320%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html
new file mode 100644
index 00000000..f3bf15b4
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="to-string.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html
new file mode 100644
index 00000000..0316098f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">TranslatorGenCode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html
new file mode 100644
index 00000000..c3c2a405
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html
new file mode 100644
index 00000000..57153b5e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>daa</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="daa.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer/daa/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ViewAlignOptionContainer</a><span class="delimiter">/</span><span class="current">daa</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>daa</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">DIAMOND alignment archive (DAA) file</p><p class="paragraph">Flag = <code class="lang-kotlin">--daa</code> | <code class="lang-kotlin">-a</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html
new file mode 100644
index 00000000..10e4bc21
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ViewAlignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
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+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
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+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+            <div class="sidebar" id="leftColumn">
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+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ViewAlignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>View</span><wbr></wbr><span>Align</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ViewAlignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html
new file mode 100644
index 00000000..09a7153b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html
@@ -0,0 +1,648 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.opts</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
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+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.opts////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.opts</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1172819569%2FClasslikes%2F769193423" anchor-label="AdvancedClusteringAlignmentOptionContainer" id="-1172819569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-clustering-alignment-option-container/index.html"><span>Advanced</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Alignment</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1172819569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1637082332%2FClasslikes%2F769193423" anchor-label="AdvancedGeneralOptionContainer" id="1637082332%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-general-option-container/index.html"><span>Advanced</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1637082332%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1388950652%2FClasslikes%2F769193423" anchor-label="AdvancedQueryOptionContainer" id="1388950652%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-query-option-container/index.html"><span>Advanced</span><wbr></wbr><span>Query</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1388950652%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1113456144%2FClasslikes%2F769193423" anchor-label="AlignerClusteringOptionContainer" id="-1113456144%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-clustering-option-container/index.html"><span>Aligner</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1113456144%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="256071372%2FClasslikes%2F769193423" anchor-label="AlignerClusteringRealignOptionContainer" id="256071372%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-clustering-realign-option-container/index.html"><span>Aligner</span><wbr></wbr><span>Clustering</span><wbr></wbr><span>Realign</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="256071372%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-248894966%2FClasslikes%2F769193423" anchor-label="AlignerGeneralOptionContainer" id="-248894966%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-general-option-container/index.html"><span>Aligner</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-248894966%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-139639231%2FClasslikes%2F769193423" anchor-label="AlignerSensitivityOptionContainer" id="-139639231%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-sensitivity-option-container/index.html"><span>Aligner</span><wbr></wbr><span>Sensitivity</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-139639231%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="896314925%2FClasslikes%2F769193423" anchor-label="AlignerViewOptionContainer" id="896314925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-view-option-container/index.html"><span>Aligner</span><wbr></wbr><span>View</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="896314925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-view-option-container/index.html">AlignerViewOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1666670569%2FClasslikes%2F769193423" anchor-label="BenchmarkType" id="1666670569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-benchmark-type/index.html"><span>Benchmark</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1666670569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-benchmark-type/index.html">BenchmarkType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-benchmark-type/index.html">BenchmarkType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="528798806%2FClasslikes%2F769193423" anchor-label="ClusteringGeneralOptionContainer" id="528798806%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-general-option-container/index.html"><span>Clustering</span><wbr></wbr><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="528798806%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861548680%2FClasslikes%2F769193423" anchor-label="ClusteringInputOptionContainer" id="-861548680%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-input-option-container/index.html"><span>Clustering</span><wbr></wbr><span>Input</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861548680%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1181373726%2FClasslikes%2F769193423" anchor-label="ClusteringReassignOptionContainer" id="1181373726%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-reassign-option-container/index.html"><span>Clustering</span><wbr></wbr><span>Reassign</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1181373726%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1536122282%2FClasslikes%2F769193423" anchor-label="CompositionBasedStats" id="1536122282%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-composition-based-stats/index.html"><span>Composition</span><wbr></wbr><span>Based</span><wbr></wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1536122282%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-composition-based-stats/index.html">CompositionBasedStats</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-composition-based-stats/index.html">CompositionBasedStats</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-345033990%2FClasslikes%2F769193423" anchor-label="Compression" id="-345033990%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-compression/index.html"><span><span>Compression</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-345033990%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-compression/index.html">Compression</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-compression/index.html">Compression</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2053623292%2FClasslikes%2F769193423" anchor-label="DistributionType" id="-2053623292%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-distribution-type/index.html"><span>Distribution</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2053623292%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-distribution-type/index.html">DistributionType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-distribution-type/index.html">DistributionType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1379521447%2FClasslikes%2F769193423" anchor-label="DNAExtensionAlgorithm" id="-1379521447%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-n-a-extension-algorithm/index.html"><span>DNAExtension</span><wbr></wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1379521447%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1710202034%2FClasslikes%2F769193423" anchor-label="EdgeFormat" id="-1710202034%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge-format/index.html"><span>Edge</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1710202034%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-edge-format/index.html">EdgeFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-edge-format/index.html">EdgeFormat</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1318776418%2FClasslikes%2F769193423" anchor-label="ExtensionMode" id="-1318776418%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-extension-mode/index.html"><span>Extension</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1318776418%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-extension-mode/index.html">ExtensionMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-extension-mode/index.html">ExtensionMode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="995452572%2FClasslikes%2F769193423" anchor-label="GeneralDBOptionContainer" id="995452572%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-d-b-option-container/index.html"><span>General</span><wbr></wbr><span>DBOption</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="995452572%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-d-b-option-container/index.html">GeneralDBOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1262004642%2FClasslikes%2F769193423" anchor-label="GeneralOptionContainer" id="-1262004642%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-option-container/index.html"><span>General</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1262004642%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-option-container/index.html">GeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1054542316%2FClasslikes%2F769193423" anchor-label="GeneralOutputHeaderOptionContainer" id="1054542316%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-output-header-option-container/index.html"><span>General</span><wbr></wbr><span>Output</span><wbr></wbr><span>Header</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1054542316%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="821505983%2FClasslikes%2F769193423" anchor-label="GeneralOutputOptionContainer" id="821505983%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-output-option-container/index.html"><span>General</span><wbr></wbr><span>Output</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="821505983%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-output-option-container/index.html">GeneralOutputOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207795393%2FClasslikes%2F769193423" anchor-label="GraphAlgorithm" id="207795393%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-graph-algorithm/index.html"><span>Graph</span><wbr></wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207795393%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-graph-algorithm/index.html">GraphAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-graph-algorithm/index.html">GraphAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960721024%2FClasslikes%2F769193423" anchor-label="HeaderOption" id="-1960721024%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-header-option/index.html"><span>Header</span><wbr></wbr><span><span>Option</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960721024%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-header-option/index.html">HeaderOption</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-header-option/index.html">HeaderOption</a><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1394090850%2FClasslikes%2F769193423" anchor-label="HiddenOptionContainer" id="-1394090850%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hidden-option-container/index.html"><span>Hidden</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394090850%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-127834180%2FClasslikes%2F769193423" anchor-label="InputType" id="-127834180%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-input-type/index.html"><span>Input</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-127834180%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-input-type/index.html">InputType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-input-type/index.html">InputType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243335801%2FClasslikes%2F769193423" anchor-label="MaskingMode" id="-1243335801%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-masking-mode/index.html"><span>Masking</span><wbr></wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243335801%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-masking-mode/index.html">MaskingMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-masking-mode/index.html">MaskingMode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2075707784%2FClasslikes%2F769193423" anchor-label="MotifMaskingAlgorithm" id="-2075707784%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif-masking-algorithm/index.html"><span>Motif</span><wbr></wbr><span>Masking</span><wbr></wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2075707784%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1026716172%2FClasslikes%2F769193423" anchor-label="OutputFormatOptionContainer" id="1026716172%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format-option-container/index.html"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1026716172%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-output-format-option-container/index.html">OutputFormatOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="802514693%2FClasslikes%2F769193423" anchor-label="QueryFileFormat" id="802514693%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-file-format/index.html"><span>Query</span><wbr></wbr><span>File</span><wbr></wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="802514693%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-query-file-format/index.html">QueryFileFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-query-file-format/index.html">QueryFileFormat</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="144966770%2FClasslikes%2F769193423" anchor-label="QueryStrand" id="144966770%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-strand/index.html"><span>Query</span><wbr></wbr><span><span>Strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="144966770%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-query-strand/index.html">QueryStrand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-query-strand/index.html">QueryStrand</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107208205%2FClasslikes%2F769193423" anchor-label="ScoreMatrix" id="1107208205%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-score-matrix/index.html"><span>Score</span><wbr></wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107208205%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-score-matrix/index.html">ScoreMatrix</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-score-matrix/index.html">ScoreMatrix</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-106917919%2FClasslikes%2F769193423" anchor-label="Sensitivity" id="-106917919%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sensitivity/index.html"><span><span>Sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-106917919%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-sensitivity/index.html">Sensitivity</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1707355751%2FClasslikes%2F769193423" anchor-label="SequenceType" id="1707355751%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sequence-type/index.html"><span>Sequence</span><wbr></wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1707355751%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-sequence-type/index.html">SequenceType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-sequence-type/index.html">SequenceType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1149418783%2FClasslikes%2F769193423" anchor-label="SoftMaskingAlgorithm" id="1149418783%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-soft-masking-algorithm/index.html"><span>Soft</span><wbr></wbr><span>Masking</span><wbr></wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1149418783%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-913908259%2FClasslikes%2F769193423" anchor-label="TranslatorGenCode" id="-913908259%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-translator-gen-code/index.html"><span>Translator</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-913908259%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-translator-gen-code/index.html">TranslatorGenCode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-translator-gen-code/index.html">TranslatorGenCode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1252604054%2FClasslikes%2F769193423" anchor-label="ViewAlignOptionContainer" id="1252604054%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view-align-option-container/index.html"><span>View</span><wbr></wbr><span>Align</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1252604054%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-view-align-option-container/index.html">ViewAlignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html
new file mode 100644
index 00000000..e7f06728
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cli-value.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.util</a><span class="delimiter">/</span><a href="index.html">CliEnum</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr></wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html
new file mode 100644
index 00000000..e16cbc83
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CliEnum</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.util</a><span class="delimiter">/</span><span class="current">CliEnum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cli</span><wbr></wbr><span><span>Enum</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">CliEnum</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html">OutputFormat</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="436176817%2FProperties%2F769193423" anchor-label="cliValue" id="436176817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr></wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="436176817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html
new file mode 100644
index 00000000..fc1a0b91
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html
@@ -0,0 +1,108 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.util</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond.util////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.util</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="87226973%2FClasslikes%2F769193423" anchor-label="CliEnum" id="87226973%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cli-enum/index.html"><span>Cli</span><wbr></wbr><span><span>Enum</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="87226973%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
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+      </div>
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+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+            </div>
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+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html
new file mode 100644
index 00000000..3e01ac2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Benchmark</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
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+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Benchmark///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Benchmark</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Benchmark</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Benchmark</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html
new file mode 100644
index 00000000..7969079d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastN</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastN///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>N</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">BlastN</a></div></div><p class="paragraph">Align DNA query sequences against a DNA reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html
new file mode 100644
index 00000000..5befceb1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>P</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastP</a></div></div><p class="paragraph">Align protein query sequences against a protein reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html
new file mode 100644
index 00000000..66cbdfd0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastX</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastX///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr></wbr><span><span>X</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastX</a></div></div><p class="paragraph">Align translated DNA query sequences against a protein reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html
new file mode 100644
index 00000000..b21d5fef
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusterRealign</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ClusterRealign///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ClusterRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cluster</span><wbr></wbr><span><span>Realign</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ClusterRealign</a></div></div><p class="paragraph">Realign clustered sequences against their centroids</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html
new file mode 100644
index 00000000..e20288a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cluster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Cluster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Cluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Cluster</a></div></div><p class="paragraph">Cluster protein sequences</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html
new file mode 100644
index 00000000..a49e52f0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-json.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-json.html">json</a> was not a string, or did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">JsonNode</code> to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the given input value was not a JSON string, or did not represent a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html
new file mode 100644
index 00000000..98eb2917
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromStringOrNull</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string-or-null.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromStringOrNull/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromStringOrNull</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a><span class="token operator">?</span></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, returning <code class="lang-kotlin">null</code> if the given <a href="from-string-or-null.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input, or <code class="lang-kotlin">null</code> if the input did not match any <code class="lang-kotlin">DiamondCommand</code> value.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>value</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">String</code> to parse.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html
new file mode 100644
index 00000000..8b5bb8fd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="from-string.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr></wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-string.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>value</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">String</code> to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the given input value did not represent a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html
new file mode 100644
index 00000000..4b61c1a1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1418809063%2FFunctions%2F769193423" anchor-label="fromJson" id="1418809063%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1418809063%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-json.html">json</a> was not a string, or did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1444895237%2FFunctions%2F769193423" anchor-label="fromString" id="-1444895237%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr></wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1444895237%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-string.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1901380005%2FFunctions%2F769193423" anchor-label="fromStringOrNull" id="1901380005%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string-or-null.html"><span>from</span><wbr></wbr><span>String</span><wbr></wbr><span>Or</span><wbr></wbr><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1901380005%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a><span class="token operator">?</span></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, returning <code class="lang-kotlin">null</code> if the given <a href="from-string-or-null.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html
new file mode 100644
index 00000000..d7bc9a91
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Composition</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Composition///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Composition</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Composition</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Composition</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html
new file mode 100644
index 00000000..2e7d55fc
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ComputeMedoids</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ComputeMedoids///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ComputeMedoids</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Compute</span><wbr></wbr><span><span>Medoids</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ComputeMedoids</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html
new file mode 100644
index 00000000..895b568b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cut</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Cut///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Cut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cut</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Cut</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html
new file mode 100644
index 00000000..0d734726
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBInfo</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DBInfo///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DBInfo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBInfo</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DBInfo</a></div></div><p class="paragraph">Print information about a database file.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html
new file mode 100644
index 00000000..c4b283e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBStats</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DBStats///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DBStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBStats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">DBStats</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html
new file mode 100644
index 00000000..b16cc22c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DeepClustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DeepClustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DeepClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Deep</span><wbr></wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DeepClustering</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html
new file mode 100644
index 00000000..9e9358c3
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FastQ2FastA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FastQ2FastA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FastQ2FastA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Fast</span><wbr></wbr><span>Q2Fast</span><wbr></wbr><span><span>A</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FastQ2FastA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html
new file mode 100644
index 00000000..7e50d9dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FetchSeq</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FetchSeq///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FetchSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Fetch</span><wbr></wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FetchSeq</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html
new file mode 100644
index 00000000..8d90bda6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FilterBlastTab</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FilterBlastTab///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FilterBlastTab</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Filter</span><wbr></wbr><span>Blast</span><wbr></wbr><span><span>Tab</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FilterBlastTab</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html
new file mode 100644
index 00000000..96f3e8d1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FindShapes</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FindShapes///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FindShapes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Find</span><wbr></wbr><span><span>Shapes</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FindShapes</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html
new file mode 100644
index 00000000..b2cb713d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GetSeq</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.GetSeq///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">GetSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Get</span><wbr></wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GetSeq</a></div></div><p class="paragraph">Retrieve sequences from a DIAMOND database file</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..2f8bd8f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.GreedyVortexCover///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr></wbr><span>Vortex</span><wbr></wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GreedyVortexCover</a></div></div><p class="paragraph">Compute greedy vertex cover</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html
new file mode 100644
index 00000000..7e6fe454
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HashSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.HashSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">HashSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hash</span><wbr></wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">HashSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html
new file mode 100644
index 00000000..a7a92f8a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Help</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Help///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Help</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Help</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Help</a></div></div><p class="paragraph">Print help message.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html
new file mode 100644
index 00000000..2407c85b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IndexFastA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.IndexFastA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">IndexFastA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Index</span><wbr></wbr><span>Fast</span><wbr></wbr><span><span>A</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">IndexFastA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html
new file mode 100644
index 00000000..f436da56
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Join</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Join///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Join</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Join</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Join</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html
new file mode 100644
index 00000000..5b4df5da
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LengthSort</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.LengthSort///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">LengthSort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Length</span><wbr></wbr><span><span>Sort</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">LengthSort</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html
new file mode 100644
index 00000000..a87a3541
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LinearCluster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.LinearCluster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">LinearCluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Linear</span><wbr></wbr><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LinearCluster</a></div></div><p class="paragraph">Cluster protein sequences in linear time</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html
new file mode 100644
index 00000000..b8227964
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ListSeeds</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ListSeeds///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ListSeeds</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>List</span><wbr></wbr><span><span>Seeds</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ListSeeds</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html
new file mode 100644
index 00000000..ea185c62
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeDB</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MakeDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr></wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MakeDB</a></div></div><p class="paragraph">Create a DIAMOND formatted reference database from a FASTA input file.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html
new file mode 100644
index 00000000..8c6ba8c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeIndex</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeIndex///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MakeIndex</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr></wbr><span><span>Index</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MakeIndex</a></div></div><p class="paragraph">Make database index</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html
new file mode 100644
index 00000000..2796fcec
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mask</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Mask///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Mask</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mask</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Mask</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html
new file mode 100644
index 00000000..5a311e3d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MergeDAA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MergeDAA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MergeDAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Merge</span><wbr></wbr><span><span>DAA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MergeDAA</a></div></div><p class="paragraph">Merge DAA files</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html
new file mode 100644
index 00000000..08eb2956
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ModelSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ModelSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ModelSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Model</span><wbr></wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ModelSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html
new file mode 100644
index 00000000..d2ca16c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mutate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Mutate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Mutate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mutate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Mutate</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html
new file mode 100644
index 00000000..d4905af8
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PrepDB</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.PrepDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">PrepDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Prep</span><wbr></wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PrepDB</a></div></div><p class="paragraph">Prepare BLAST database for use with Diamond. This call requires the path to the BLAST database (option <code class="lang-kotlin">-d</code>) and will write a number of small auxiliary files into the database directory.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html
new file mode 100644
index 00000000..87502224
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ROCID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ROCID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ROCID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ROCID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ROCID</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html
new file mode 100644
index 00000000..944a9558
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ROC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ROC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ROC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ROC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ROC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html
new file mode 100644
index 00000000..a646a0f7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RandomSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.RandomSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">RandomSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Random</span><wbr></wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">RandomSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html
new file mode 100644
index 00000000..a164fb37
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReadSim</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ReadSim///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ReadSim</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Read</span><wbr></wbr><span><span>Sim</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ReadSim</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html
new file mode 100644
index 00000000..a937d910
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReassignClusters</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ReassignClusters///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ReassignClusters</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reassign</span><wbr></wbr><span><span>Clusters</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ReassignClusters</a></div></div><p class="paragraph">Reassign clustered sequences to the closest centroid</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html
new file mode 100644
index 00000000..3032d5c5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RecomputeClustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.RecomputeClustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">RecomputeClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Recompute</span><wbr></wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RecomputeClustering</a></div></div><p class="paragraph">Recompute clustering to fix errors</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html
new file mode 100644
index 00000000..38192bd7
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reverse</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Reverse///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Reverse</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reverse</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Reverse</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html
new file mode 100644
index 00000000..09535f85
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SeedStat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SeedStat///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SeedStat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Seed</span><wbr></wbr><span><span>Stat</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SeedStat</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html
new file mode 100644
index 00000000..675602e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ShowCBS</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ShowCBS///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ShowCBS</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Show</span><wbr></wbr><span><span>CBS</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ShowCBS</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html
new file mode 100644
index 00000000..1d657c18
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SimulateSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SimulateSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SimulateSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Simulate</span><wbr></wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SimulateSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html
new file mode 100644
index 00000000..b0568346
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SmithWaterman</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SmithWaterman///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SmithWaterman</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Smith</span><wbr></wbr><span><span>Waterman</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SmithWaterman</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html
new file mode 100644
index 00000000..6d8f4f2c
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sort</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Sort///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Sort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sort</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Sort</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html
new file mode 100644
index 00000000..6a9bbb9b
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Split</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Split///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Split</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Split</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Split</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html
new file mode 100644
index 00000000..271d30ad
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Test</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Test///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Test</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Test</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Test</a></div></div><p class="paragraph">Run a series of test cases and verify the output against reference hashes.</p><p class="paragraph">This command will exit with code <code class="lang-kotlin">0</code> if all tests have passed and <code class="lang-kotlin">1</code> otherwise.</p><p class="paragraph">Running this command requires write access to the current working directory.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html
new file mode 100644
index 00000000..f1879922
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Translate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Translate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Translate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Translate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Translate</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html
new file mode 100644
index 00000000..d69aaae5
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UpGMAMC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.UpGMAMC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">UpGMAMC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Up</span><wbr></wbr><span><span>GMAMC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">UpGMAMC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html
new file mode 100644
index 00000000..06bac9c6
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UpGMA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.UpGMA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">UpGMA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Up</span><wbr></wbr><span><span>GMA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">UpGMA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html
new file mode 100644
index 00000000..e4701163
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Version</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Version///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Version</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Version</a></div></div><p class="paragraph">Print version information.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html
new file mode 100644
index 00000000..e38c525d
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>View</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.View///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">View</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>View</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">View</a></div></div><p class="paragraph">Generate formatted output from DAA files.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html
new file mode 100644
index 00000000..d85ac002
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html
@@ -0,0 +1,139 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>WC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.WC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">WC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>WC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">WC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html
new file mode 100644
index 00000000..2c25ab88
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>command</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="command.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/command/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">command</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>command</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html
new file mode 100644
index 00000000..ae819fe2
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="entries.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html
new file mode 100644
index 00000000..86aef31e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html
@@ -0,0 +1,991 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondCommand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondCommand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span><span>Command</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DiamondCommand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt; </span></div><p class="paragraph">Enum of DIAMOND commands.</p><p class="paragraph">DIAMOND Docs:</p><blockquote class="quotation"><p class="paragraph">Commands are issued as the first parameter on the command line and set the task to be run by the program.</p></blockquote><span class="kdoc-tag"><h4 class="">Since</h4><p class="paragraph">v1.0.0</p></span></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-400366890%2FClasslikes%2F769193423" anchor-label="MakeDB" id="-400366890%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-d-b/index.html">MakeDB</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-400366890%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-make-d-b/index.html">MakeDB</a></div></div><div class="brief "><p class="paragraph">Create a DIAMOND formatted reference database from a FASTA input file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1046581013%2FClasslikes%2F769193423" anchor-label="PrepDB" id="1046581013%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-prep-d-b/index.html">PrepDB</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1046581013%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-prep-d-b/index.html">PrepDB</a></div></div><div class="brief "><p class="paragraph">Prepare BLAST database for use with Diamond. This call requires the path to the BLAST database (option <code class="lang-kotlin">-d</code>) and will write a number of small auxiliary files into the database directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2009124798%2FClasslikes%2F769193423" anchor-label="BlastP" id="-2009124798%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-p/index.html">BlastP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009124798%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-p/index.html">BlastP</a></div></div><div class="brief "><p class="paragraph">Align protein query sequences against a protein reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="547820106%2FClasslikes%2F769193423" anchor-label="BlastX" id="547820106%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-x/index.html">BlastX</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="547820106%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-x/index.html">BlastX</a></div></div><div class="brief "><p class="paragraph">Align translated DNA query sequences against a protein reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="397556303%2FClasslikes%2F769193423" anchor-label="View" id="397556303%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view/index.html">View</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="397556303%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-view/index.html">View</a></div></div><div class="brief "><p class="paragraph">Generate formatted output from DAA files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-798691818%2FClasslikes%2F769193423" anchor-label="DBInfo" id="-798691818%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-info/index.html">DBInfo</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-798691818%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-d-b-info/index.html">DBInfo</a></div></div><div class="brief "><p class="paragraph">Print information about a database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1814859734%2FClasslikes%2F769193423" anchor-label="Version" id="1814859734%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-version/index.html">Version</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1814859734%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-version/index.html">Version</a></div></div><div class="brief "><p class="paragraph">Print version information.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-810908181%2FClasslikes%2F769193423" anchor-label="Help" id="-810908181%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-help/index.html">Help</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-810908181%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-help/index.html">Help</a></div></div><div class="brief "><p class="paragraph">Print help message.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="324340604%2FClasslikes%2F769193423" anchor-label="Test" id="324340604%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-test/index.html">Test</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="324340604%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-test/index.html">Test</a></div></div><div class="brief "><p class="paragraph">Run a series of test cases and verify the output against reference hashes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-308984456%2FClasslikes%2F769193423" anchor-label="Cluster" id="-308984456%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster/index.html">Cluster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-308984456%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-cluster/index.html">Cluster</a></div></div><div class="brief "><p class="paragraph">Cluster protein sequences</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="930254291%2FClasslikes%2F769193423" anchor-label="LinearCluster" id="930254291%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-linear-cluster/index.html">LinearCluster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="930254291%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-linear-cluster/index.html">LinearCluster</a></div></div><div class="brief "><p class="paragraph">Cluster protein sequences in linear time</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-172263870%2FClasslikes%2F769193423" anchor-label="ClusterRealign" id="-172263870%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster-realign/index.html">ClusterRealign</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-172263870%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-cluster-realign/index.html">ClusterRealign</a></div></div><div class="brief "><p class="paragraph">Realign clustered sequences against their centroids</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1010397590%2FClasslikes%2F769193423" anchor-label="RecomputeClustering" id="-1010397590%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-recompute-clustering/index.html">RecomputeClustering</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1010397590%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-recompute-clustering/index.html">RecomputeClustering</a></div></div><div class="brief "><p class="paragraph">Recompute clustering to fix errors</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1200551707%2FClasslikes%2F769193423" anchor-label="ReassignClusters" id="-1200551707%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reassign-clusters/index.html">ReassignClusters</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1200551707%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reassign-clusters/index.html">ReassignClusters</a></div></div><div class="brief "><p class="paragraph">Reassign clustered sequences to the closest centroid</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1658699114%2FClasslikes%2F769193423" anchor-label="MergeDAA" id="-1658699114%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-merge-d-a-a/index.html">MergeDAA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1658699114%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-merge-d-a-a/index.html">MergeDAA</a></div></div><div class="brief "><p class="paragraph">Merge DAA files</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2055561133%2FClasslikes%2F769193423" anchor-label="GetSeq" id="-2055561133%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-get-seq/index.html">GetSeq</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2055561133%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-get-seq/index.html">GetSeq</a></div></div><div class="brief "><p class="paragraph">Retrieve sequences from a DIAMOND database file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-158371070%2FClasslikes%2F769193423" anchor-label="MakeIndex" id="-158371070%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-index/index.html">MakeIndex</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-158371070%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-make-index/index.html">MakeIndex</a></div></div><div class="brief "><p class="paragraph">Make database index</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1775627687%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="1775627687%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1775627687%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></div><div class="brief "><p class="paragraph">Compute greedy vertex cover</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1436749500%2FClasslikes%2F769193423" anchor-label="ROC" id="-1436749500%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-r-o-c/index.html">ROC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1436749500%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-r-o-c/index.html">ROC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="158480059%2FClasslikes%2F769193423" anchor-label="Benchmark" id="158480059%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-benchmark/index.html">Benchmark</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="158480059%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-benchmark/index.html">Benchmark</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="455909790%2FClasslikes%2F769193423" anchor-label="DeepClustering" id="455909790%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deep-clustering/index.html">DeepClustering</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="455909790%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-deep-clustering/index.html">DeepClustering</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="39418625%2FClasslikes%2F769193423" anchor-label="RandomSeqs" id="39418625%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-random-seqs/index.html">RandomSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="39418625%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-random-seqs/index.html">RandomSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1981337480%2FClasslikes%2F769193423" anchor-label="Sort" id="1981337480%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sort/index.html">Sort</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1981337480%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-sort/index.html">Sort</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-778525665%2FClasslikes%2F769193423" anchor-label="DBStats" id="-778525665%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-stats/index.html">DBStats</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-778525665%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-d-b-stats/index.html">DBStats</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1812659286%2FClasslikes%2F769193423" anchor-label="Mask" id="1812659286%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mask/index.html">Mask</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1812659286%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-mask/index.html">Mask</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2057448442%2FClasslikes%2F769193423" anchor-label="FastQ2FastA" id="-2057448442%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fast-q2-fast-a/index.html">FastQ2FastA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2057448442%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-fast-q2-fast-a/index.html">FastQ2FastA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="170880159%2FClasslikes%2F769193423" anchor-label="ReadSim" id="170880159%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-read-sim/index.html">ReadSim</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="170880159%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-read-sim/index.html">ReadSim</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1145093391%2FClasslikes%2F769193423" anchor-label="SeedStat" id="1145093391%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seed-stat/index.html">SeedStat</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1145093391%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-seed-stat/index.html">SeedStat</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1718446340%2FClasslikes%2F769193423" anchor-label="SmithWaterman" id="1718446340%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-smith-waterman/index.html">SmithWaterman</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1718446340%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-smith-waterman/index.html">SmithWaterman</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1153960116%2FClasslikes%2F769193423" anchor-label="Translate" id="-1153960116%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-translate/index.html">Translate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1153960116%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-translate/index.html">Translate</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="795021887%2FClasslikes%2F769193423" anchor-label="FilterBlastTab" id="795021887%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-filter-blast-tab/index.html">FilterBlastTab</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="795021887%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-filter-blast-tab/index.html">FilterBlastTab</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="104503925%2FClasslikes%2F769193423" anchor-label="ShowCBS" id="104503925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-show-c-b-s/index.html">ShowCBS</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="104503925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-show-c-b-s/index.html">ShowCBS</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-178817374%2FClasslikes%2F769193423" anchor-label="SimulateSeqs" id="-178817374%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simulate-seqs/index.html">SimulateSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-178817374%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-simulate-seqs/index.html">SimulateSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1179478296%2FClasslikes%2F769193423" anchor-label="Split" id="1179478296%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-split/index.html">Split</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1179478296%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-split/index.html">Split</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="933040926%2FClasslikes%2F769193423" anchor-label="UpGMA" id="933040926%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-up-g-m-a/index.html">UpGMA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="933040926%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-up-g-m-a/index.html">UpGMA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-449810508%2FClasslikes%2F769193423" anchor-label="UpGMAMC" id="-449810508%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-up-g-m-a-m-c/index.html">UpGMAMC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-449810508%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-up-g-m-a-m-c/index.html">UpGMAMC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1765990304%2FClasslikes%2F769193423" anchor-label="Reverse" id="-1765990304%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reverse/index.html">Reverse</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1765990304%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-reverse/index.html">Reverse</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2040177176%2FClasslikes%2F769193423" anchor-label="ComputeMedoids" id="-2040177176%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-compute-medoids/index.html">ComputeMedoids</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2040177176%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-compute-medoids/index.html">ComputeMedoids</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1078299216%2FClasslikes%2F769193423" anchor-label="Mutate" id="-1078299216%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mutate/index.html">Mutate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1078299216%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-mutate/index.html">Mutate</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1614031135%2FClasslikes%2F769193423" anchor-label="ROCID" id="1614031135%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-r-o-c-i-d/index.html">ROCID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1614031135%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-r-o-c-i-d/index.html">ROCID</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827891531%2FClasslikes%2F769193423" anchor-label="FindShapes" id="-827891531%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-find-shapes/index.html">FindShapes</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827891531%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-find-shapes/index.html">FindShapes</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-645422040%2FClasslikes%2F769193423" anchor-label="Composition" id="-645422040%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-composition/index.html">Composition</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-645422040%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-composition/index.html">Composition</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="730622484%2FClasslikes%2F769193423" anchor-label="Join" id="730622484%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-join/index.html">Join</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="730622484%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-join/index.html">Join</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="10640908%2FClasslikes%2F769193423" anchor-label="HashSeqs" id="10640908%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hash-seqs/index.html">HashSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="10640908%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-hash-seqs/index.html">HashSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2123106910%2FClasslikes%2F769193423" anchor-label="ListSeeds" id="-2123106910%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-list-seeds/index.html">ListSeeds</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2123106910%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-list-seeds/index.html">ListSeeds</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1161257053%2FClasslikes%2F769193423" anchor-label="IndexFastA" id="1161257053%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-index-fast-a/index.html">IndexFastA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1161257053%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-index-fast-a/index.html">IndexFastA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-195930129%2FClasslikes%2F769193423" anchor-label="FetchSeq" id="-195930129%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fetch-seq/index.html">FetchSeq</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-195930129%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-fetch-seq/index.html">FetchSeq</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1574619200%2FClasslikes%2F769193423" anchor-label="BlastN" id="-1574619200%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-n/index.html">BlastN</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1574619200%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-blast-n/index.html">BlastN</a></div></div><div class="brief "><p class="paragraph">Align DNA query sequences against a DNA reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1110674574%2FClasslikes%2F769193423" anchor-label="LengthSort" id="1110674574%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-length-sort/index.html">LengthSort</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1110674574%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-length-sort/index.html">LengthSort</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-558648938%2FClasslikes%2F769193423" anchor-label="WC" id="-558648938%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-w-c/index.html">WC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-558648938%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-w-c/index.html">WC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1050022720%2FClasslikes%2F769193423" anchor-label="Cut" id="-1050022720%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cut/index.html">Cut</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1050022720%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-cut/index.html">Cut</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="60827771%2FClasslikes%2F769193423" anchor-label="ModelSeqs" id="60827771%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-model-seqs/index.html">ModelSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="60827771%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-model-seqs/index.html">ModelSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="1564601211%2FClasslikes%2F769193423" anchor-label="Companion" id="1564601211%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1564601211%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="436668772%2FProperties%2F769193423" anchor-label="entries" id="436668772%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="436668772%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1377945928%2FFunctions%2F769193423" anchor-label="valueOf" id="-1377945928%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr></wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1377945928%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2140035644%2FFunctions%2F769193423" anchor-label="values" id="-2140035644%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2140035644%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html
new file mode 100644
index 00000000..9b292d5a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="value-of.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr></wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DiamondCommand</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html
new file mode 100644
index 00000000..753d4818
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="values.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html
new file mode 100644
index 00000000..54fc242f
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html
@@ -0,0 +1,89 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondExtras</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondExtras///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondExtras</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span><span>Extras</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="index.html">DiamondExtras</a></div><p class="paragraph">Opt-in annotation for features that require the DIAMOND CLI tool to be compiled with extras enabled.</p><span class="kdoc-tag"><h4 class="">Since</h4><p class="paragraph">1.0.0</p></span></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"></div>
+    <div class="tabs-section-body"></div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html
new file mode 100644
index 00000000..41b4f644
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html
@@ -0,0 +1,89 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondHidden</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/DiamondHidden///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondHidden</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr></wbr><span><span>Hidden</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="index.html">DiamondHidden</a></div><p class="paragraph">Opt-in annotation for features that are explicitly marked as hidden in the DIAMOND CLI tool source code.</p><span class="kdoc-tag"><h4 class="">Since</h4><p class="paragraph">1.0.0</p></span></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"></div>
+    <div class="tabs-section-body"></div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/cache-format-field-json.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/cache-format-field-json.html
new file mode 100644
index 00000000..447eebcb
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/cache-format-field-json.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cacheFormatFieldJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/cache-format-field-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="cache-format-field-json.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond.Options/cacheFormatFieldJson/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">Diamond</a><span class="delimiter">/</span><a href="index.html">Options</a><span class="delimiter">/</span><span class="current">cacheFormatFieldJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cache</span><wbr></wbr><span>Format</span><wbr></wbr><span>Field</span><wbr></wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="cache-format-field-json.html"><span class="token function">cacheFormatFieldJson</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span></div><p class="paragraph">If <a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html">org.veupathdb.lib.cli.diamond.opts.output_format.FormatField</a> values are going to be parsed frequently, it may be worthwhile to cache the JSON string to enum value mapping to speed up those translations.</p><p class="paragraph">By default, a given JSON string will be compared to both short and long form representations of each <code class="lang-kotlin">FormatField</code> entry, meaning up to 152 possible string comparison tests per input.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/index.html
new file mode 100644
index 00000000..a59ad467
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/index.html
@@ -0,0 +1,109 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Options</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../../not-found-version.html?v=v0.1.0">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond.Options///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">Diamond</a><span class="delimiter">/</span><span class="current">Options</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Options</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Options</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-824843192%2FFunctions%2F769193423" anchor-label="cacheFormatFieldJson" id="-824843192%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cache-format-field-json.html"><span>cache</span><wbr></wbr><span>Format</span><wbr></wbr><span>Field</span><wbr></wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-824843192%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="cache-format-field-json.html"><span class="token function">cacheFormatFieldJson</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span></div><div class="brief "><p class="paragraph">If <a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/index.html">org.veupathdb.lib.cli.diamond.opts.output_format.FormatField</a> values are going to be parsed frequently, it may be worthwhile to cache the JSON string to enum value mapping to speed up those translations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html
new file mode 100644
index 00000000..b8eb79e0
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastN</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="blast-n.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastN/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr></wbr><span><span>N</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration instance.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The new <code class="lang-kotlin">BlastN</code> instance.</p></span><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastN</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON value to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastN</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastN</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON string to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given string could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastN</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastN</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON stream to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given stream could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastN</code> CLI configuration.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html
new file mode 100644
index 00000000..e640a175
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastP</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="blast-p.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastP/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr></wbr><span><span>P</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration instance.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The new <code class="lang-kotlin">BlastP</code> instance.</p></span><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastP</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON value to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastP</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastP</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON string to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given string could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastP</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastP</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON stream to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given stream could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastP</code> CLI configuration.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html
new file mode 100644
index 00000000..e60a0674
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html
@@ -0,0 +1,85 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastX</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="blast-x.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastX/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr></wbr><span><span>X</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration instance.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The new <code class="lang-kotlin">BlastX</code> instance.</p></span><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastX</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON value to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastX</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastP</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON string to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given string could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastP</code> CLI configuration.</p></div></div></div></div></div><hr><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">The parsed <code class="lang-kotlin">BlastX</code> instance.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph">JSON stream to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><span data-unresolved-link="com.fasterxml.jackson.core/JacksonException///PointingToDeclaration/"><span>Jackson</span><wbr></wbr><span><span>Exception</span></span></span></div></span></div><div><div class="title"><p class="paragraph">if the given stream could not be parsed as JSON.</p></div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr></wbr><span>Argument</span><wbr></wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the input JSON could not be parsed as a <code class="lang-kotlin">BlastX</code> CLI configuration.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html
new file mode 100644
index 00000000..2e693d2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html
@@ -0,0 +1,158 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Diamond</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond/Diamond///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">Diamond</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Diamond</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Diamond</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-326109394%2FClasslikes%2F769193423" anchor-label="Options" id="-326109394%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-options/index.html"><span><span>Options</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-326109394%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-options/index.html">Options</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1916409975%2FFunctions%2F769193423" anchor-label="blastN" id="1916409975%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-n.html"><span>blast</span><wbr></wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1916409975%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="brief "><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration instance.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a> CLI configuration.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164774075%2FFunctions%2F769193423" anchor-label="blastP" id="164774075%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-p.html"><span>blast</span><wbr></wbr><span><span>P</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164774075%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="brief "><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration instance.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1748165067%2FFunctions%2F769193423" anchor-label="blastX" id="1748165067%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-x.html"><span>blast</span><wbr></wbr><span><span>X</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1748165067%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="brief "><p class="paragraph">Creates a new, blank <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration instance.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON value as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON stream as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a> CLI configuration.</p></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="brief "><p class="paragraph">Attempts to parse the given JSON string as a <a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a> CLI configuration.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html
new file mode 100644
index 00000000..05f1062a
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html
@@ -0,0 +1,153 @@
+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async="async"></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="../../scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="../../older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageIds="diamondcli::org.veupathdb.lib.cli.diamond////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="336560318%2FClasslikes%2F769193423" anchor-label="Diamond" id="336560318%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond/index.html"><span><span>Diamond</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="336560318%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-diamond/index.html">Diamond</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-477232583%2FClasslikes%2F769193423" anchor-label="DiamondCommand" id="-477232583%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-command/index.html"><span>Diamond</span><wbr></wbr><span><span>Command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-477232583%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-diamond-command/index.html">DiamondCommand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-diamond-command/index.html">DiamondCommand</a><span class="token operator">&gt; </span></div><div class="brief "><p class="paragraph">Enum of DIAMOND commands.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2111467045%2FClasslikes%2F769193423" anchor-label="DiamondExtras" id="-2111467045%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-extras/index.html"><span>Diamond</span><wbr></wbr><span><span>Extras</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2111467045%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="-diamond-extras/index.html">DiamondExtras</a></div><div class="brief "><p class="paragraph">Opt-in annotation for features that require the DIAMOND CLI tool to be compiled with extras enabled.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-765800332%2FClasslikes%2F769193423" anchor-label="DiamondHidden" id="-765800332%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-hidden/index.html"><span>Diamond</span><wbr></wbr><span><span>Hidden</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-765800332%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="-diamond-hidden/index.html">DiamondHidden</a></div><div class="brief "><p class="paragraph">Opt-in annotation for features that are explicitly marked as hidden in the DIAMOND CLI tool source code.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/diamondcli/package-list b/docs/dokka/v0.2.0/diamondcli/package-list
new file mode 100644
index 00000000..3639c202
--- /dev/null
+++ b/docs/dokka/v0.2.0/diamondcli/package-list
@@ -0,0 +1,887 @@
+$dokka.format:html-v1
+$dokka.linkExtension:html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands////PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastN///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastN/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastP///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastP/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastX///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/BlastX/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/Cluster///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/Cluster/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/ClusterRealign///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/ClusterRealign/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DBInfo///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DBInfo/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DeepClustering///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DeepClustering/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/GetSeq///PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/GetSeq/seq/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html
+$dokka.location:org.veupathdb.lib.cli.diamond.commands/GetSeq/tool/#/PointingToDeclaration/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html
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diff --git a/docs/dokka/v0.2.0/index.html b/docs/dokka/v0.2.0/index.html
new file mode 100644
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--- /dev/null
+++ b/docs/dokka/v0.2.0/index.html
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+<!DOCTYPE html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diamondcli</title>
+    <link href="images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async="async"></script>
+<script type="text/javascript" src="scripts/sourceset_dependencies.js" async="async"></script>
+<link href="styles/style.css" rel="Stylesheet">
+<link href="styles/main.css" rel="Stylesheet">
+<link href="styles/prism.css" rel="Stylesheet">
+<link href="styles/logo-styles.css" rel="Stylesheet">
+<link href="styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="scripts/clipboard.js" async="async"></script>
+<script type="text/javascript" src="scripts/navigation-loader.js" async="async"></script>
+<script type="text/javascript" src="scripts/platform-content-handler.js" async="async"></script>
+<script type="text/javascript" src="scripts/main.js" defer="defer"></script>
+<script type="text/javascript" src="scripts/prism.js" async="async"></script>
+<script type="text/javascript" src="scripts/symbol-parameters-wrapper_deferred.js" defer="defer"></script>
+<link href="styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.2.0</div>
+  <div class="versions-dropdown-data"><a href="index.html">v0.2.0</a><a href="older/v0.1.0/index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" id="content" pageIds="diamondcli::////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>diamondcli</span></span></h1>
+  </div>
+  <h2 class="">Packages</h2>
+  <div class="table"><a data-name="-1723732976%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond" id="-1723732976%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond/index.html">org.veupathdb.lib.cli.diamond</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1723732976%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="-2120229206%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.commands" id="-2120229206%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html">org.veupathdb.lib.cli.diamond.commands</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2120229206%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="92425794%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.opts" id="92425794%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html">org.veupathdb.lib.cli.diamond.opts</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="92425794%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="871341833%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.opts.output_format" id="871341833%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871341833%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="-996466780%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.util" id="-996466780%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.util/index.html">org.veupathdb.lib.cli.diamond.util</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-996466780%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span
+                class="pull-right"><span>Generated by </span><a
+                href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
diff --git a/docs/dokka/v0.2.0/navigation.html b/docs/dokka/v0.2.0/navigation.html
new file mode 100644
index 00000000..1ab875e6
--- /dev/null
+++ b/docs/dokka/v0.2.0/navigation.html
@@ -0,0 +1,1020 @@
+<div class="sideMenuPart" id="diamondcli-nav-submenu" pageId="diamondcli::////PointingToDeclaration//769193423">
+  <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="index.html"><span><span>diamondcli</span></span></a></div>
+  <div class="sideMenuPart" id="diamondcli-nav-submenu-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-0&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond/index.html"><span>org.</span><wbr></wbr><span>veupathdb.</span><wbr></wbr><span>lib.</span><wbr></wbr><span>cli.</span><wbr></wbr><span>diamond</span></a></div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-0-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond/Diamond///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-0-0&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Diamond</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-0-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond/Diamond.Options///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond/-options/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Options</span></span></span></span></a></div>
+      </div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-0-1&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Diamond</span><wbr></wbr><span><span>Command</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-1" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Make</span><wbr></wbr><span><span>DB</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-2" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.PrepDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Prep</span><wbr></wbr><span><span>DB</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-3" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr></wbr><span><span>P</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-4" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastX///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr></wbr><span><span>X</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-5" pageId="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.View///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>View</span></span></span></span></a></div>
+      </div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Split</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>MMap</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>IPS4O</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Hauser</span><wbr></wbr><span><span>Global</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-13-1" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>None</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>ZLib</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>ZStd</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Bit</span><wbr></wbr><span><span>Score</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-34-1" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>None</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Tantan</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-34-4" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Motif</span></span></span></span></a></div>
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+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-2-35&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Translator</span><wbr></wbr><span>Gen</span><wbr></wbr><span><span>Code</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Standard</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-2" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.VertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Vertebrate</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-3" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.YeastMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Yeast</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Mold</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-5" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ProtozoanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Protozoan</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-6" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CoelenterateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Coelenterate</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-7" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Mycoplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Mycoplasma</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-8" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Spiroplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Spiroplasma</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-9" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.InvertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Invertebrate</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-10" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CiliateNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ciliate</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-11" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.DasycladaceanNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Dasycladacean</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-12" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.HexamitaNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Hexamita</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-13" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EchinodermMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Echinoderm</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-14" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.FlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Flatworm</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-15" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EuplotidNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Euplotid</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-16" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.BacterialPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Bacterial</span><wbr></wbr><span><span>Plastid</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-17" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ArchaealPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Archaeal</span><wbr></wbr><span><span>Plastid</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-18" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PlantPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Plant</span><wbr></wbr><span><span>Plastid</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-19" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeYeastNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alternative</span><wbr></wbr><span>Yeast</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-20" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AscidianMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ascidian</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-21" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeFlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alternative</span><wbr></wbr><span>Flatworm</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-22" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ChlorophyceanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Chlorophycean</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-23" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.TrematodeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Trematode</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Scenedesmus</span><wbr></wbr><span>Obliquus</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Thraustochytrium</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-26" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.RhabdopleuridaeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Rhabdopleuridae</span><wbr></wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Candidate</span><wbr></wbr><span>Division</span><wbr></wbr><span><span>SR1</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Gracilibacteria</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Pachysolen</span><wbr></wbr><span>Tannophilus</span><wbr></wbr><span><span>Nuclear</span></span></span></span></a></div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-2-36" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon interface-kt"></span><span class="nav-link-child"><span>View</span><wbr></wbr><span>Align</span><wbr></wbr><span>Option</span><wbr></wbr><span><span>Container</span></span></span></span></a></div>
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+  <div class="sideMenuPart" id="diamondcli-nav-submenu-3" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html"><span>org.</span><wbr></wbr><span>veupathdb.</span><wbr></wbr><span>lib.</span><wbr></wbr><span>cli.</span><wbr></wbr><span>diamond.</span><wbr></wbr><span>opts.</span><wbr></wbr><span><span>output_format</span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-i-d/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>ID</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-g-i/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>GI</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>Accesion</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-accesion-version/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Accesion</span><wbr></wbr><span><span>Version</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Length</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-6" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-i-d/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>ID</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-7" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectSequenceIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-sequence-i-ds/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>IDs</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-g-i/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>GI</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-g-is/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>GIs</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Accesion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-11" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-accesion-version/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Accesion</span><wbr></wbr><span><span>Version</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-accesions/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Accesions</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Length</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-start/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Start</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-alignment-end/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>End</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-16" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-start/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>Start</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-17" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-alignment-end/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Alignment</span><wbr></wbr><span><span>End</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Sequence</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-19" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignedSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-subject-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Sequence</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-expect-value/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Expect</span><wbr></wbr><span><span>Value</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-21" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-bit-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Bit</span><wbr></wbr><span><span>Score</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-22" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.RawScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-raw-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Raw</span><wbr></wbr><span><span>Score</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-23" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignmentLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-alignment-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alignment</span><wbr></wbr><span><span>Length</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-24" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PercentIdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-identical-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Percent</span><wbr></wbr><span>Identical</span><wbr></wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-25" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.IdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-identical-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Identical</span><wbr></wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-26" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Mismatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-mismatches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Mismatches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-27" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-positive-scoring-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Positive</span><wbr></wbr><span>Scoring</span><wbr></wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-28" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.GapOpenings///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-gap-openings/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Gap</span><wbr></wbr><span><span>Openings</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-29" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.TotalGaps///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-total-gaps/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Total</span><wbr></wbr><span><span>Gaps</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-30" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PercentPositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-percent-positive-scoring-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Percent</span><wbr></wbr><span>Positive</span><wbr></wbr><span>Scoring</span><wbr></wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-31" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Frames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-frames/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Frames</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-32" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-frame/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>Frame</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-33" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-frame/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Frame</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-34" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.BlastTracebackOperations///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-blast-traceback-operations/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr></wbr><span>Traceback</span><wbr></wbr><span><span>Operations</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-35" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectTaxonomyIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-taxonomy-i-ds/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Taxonomy</span><wbr></wbr><span><span>IDs</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-36" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectScientificNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-scientific-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Scientific</span><wbr></wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-37" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectCommonNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-common-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Common</span><wbr></wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-38" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectBlastNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-blast-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Blast</span><wbr></wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-39" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSuperKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-super-kingdoms/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Super</span><wbr></wbr><span><span>Kingdoms</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-40" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-title/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Title</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-41" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AllSubjectTitles///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-all-subject-titles/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Titles</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-42" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-strand/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Strand</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-43" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-subject/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>Subject</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-44" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-h-s-p/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>HSP</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-45" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryCoveragePerUniqueSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-coverage-per-unique-subject/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span>Unique</span><wbr></wbr><span><span>Subject</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-46" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-title/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>Title</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-47" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SWDiff///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-s-w-diff/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>SWDiff</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-48" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Time///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-time/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Time</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-49" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-subject-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr></wbr><span>Subject</span><wbr></wbr><span><span>Sequence</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-50" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.AlignedQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-aligned-query-quality-values/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr></wbr><span>Query</span><wbr></wbr><span>Quality</span><wbr></wbr><span><span>Values</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-51" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>Num</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-52" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Num</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-53" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-coverage-per-h-s-p/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Coverage</span><wbr></wbr><span>Per</span><wbr></wbr><span><span>HSP</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-54" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-quality-values/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span>Quality</span><wbr></wbr><span><span>Values</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-55" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.FullQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span><span>Sequence</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-56" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-gapped/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Gapped</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-57" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectSequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-sequence-gapped/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Gapped</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-58" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QueryStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-strand/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span><span>Strand</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-59" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.CIGAR///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-c-i-g-a-r/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>CIGAR</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-60" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-kingdoms/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Kingdoms</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-61" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectPhylums///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-phylums/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Phylums</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-ungapped-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ungapped</span><wbr></wbr><span><span>Score</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-full-query-sequence-of-mate/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr></wbr><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span>Of</span><wbr></wbr><span><span>Mate</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-64" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.QuerySequenceTranslated///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-query-sequence-translated/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr></wbr><span>Sequence</span><wbr></wbr><span><span>Translated</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-65" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.ReducedMatchBitString///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reduced-match-bit-string/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Reduced</span><wbr></wbr><span>Match</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>String</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-66" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NormalizedBitScoreSemiglobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-semiglobal/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Normalized</span><wbr></wbr><span>Bit</span><wbr></wbr><span>Score</span><wbr></wbr><span><span>Semiglobal</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-67" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.HSPNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-h-s-p-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>HSPNum</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-68" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NormalizedBitScoreGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-normalized-bit-score-global/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Normalized</span><wbr></wbr><span>Bit</span><wbr></wbr><span>Score</span><wbr></wbr><span><span>Global</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-69" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.PIDENT_GLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>PIDENT_GLOBAL</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-70" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.EXT_COUNT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-e-x-t_-c-o-u-n-t/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>EXT_COUNT</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-71" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NW_SEMIGLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>NW_SEMIGLOBAL</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-72" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.APPROX_PIDENT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>APPROX_PIDENT</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-73" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.CorrectedBitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-corrected-bit-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Corrected</span><wbr></wbr><span>Bit</span><wbr></wbr><span><span>Score</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-74" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.NEG_EVALUE///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-n-e-g_-e-v-a-l-u-e/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>NEG_EVALUE</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-75" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Reserved1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved1/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Reserved1</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-76" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.Reserved2///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-reserved2/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Reserved2</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-77" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/FormatField.SubjectLineages///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/-subject-lineages/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr></wbr><span><span>Lineages</span></span></span></span></a></div>
+      </div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-3" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Json</span><wbr></wbr><span>Flat</span><wbr></wbr><span><span>Format</span></span></span></span></a></div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3-4&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Output</span><wbr></wbr><span><span>Format</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-1" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Pairwise///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Pairwise</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>XML</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-3" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.BlastTab///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr></wbr><span><span>Tab</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-12" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Edge///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Edge</span></span></span></span></a></div>
+      </div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-5" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions///PointingToDeclaration//769193423">
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+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-6" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format//OutputFormatOptions/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon function"></span><span class="nav-link-child"><span>Output</span><wbr></wbr><span>Format</span><wbr></wbr><span><span>Options()</span></span></span></span></a></div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-7" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3-7&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Simple</span><wbr></wbr><span>Output</span><wbr></wbr><span><span>Format</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-7-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
+      </div>
+    </div>
+  </div>
+  <div class="sideMenuPart" id="diamondcli-nav-submenu-4" pageId="diamondcli::org.veupathdb.lib.cli.diamond.util////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-4&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.util/index.html"><span>org.</span><wbr></wbr><span>veupathdb.</span><wbr></wbr><span>lib.</span><wbr></wbr><span>cli.</span><wbr></wbr><span>diamond.</span><wbr></wbr><span>util</span></a></div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-4-0" pageId="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon interface-kt"></span><span class="nav-link-child"><span>Cli</span><wbr></wbr><span><span>Enum</span></span></span></span></a></div>
+    </div>
+  </div>
+</div>
+
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+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
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+    <div class="root">
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+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
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+            <div class="library-version">
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+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastN///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>N</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">interface </span><a href="index.html">BlastN</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr><span>Long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Gap</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Skip</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr><span>Multi</span><wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr><span>Map</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr><span>Standard</span><wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr><span>EValue</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr><span>Query</span><wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr><span>Or</span><wbr><span>Subject</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr><span>Parallel</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr><span>Query</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr><span>Match</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1481834445%2FProperties%2F769193423" anchor-label="tool" id="-1481834445%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1481834445%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr><span>Bl</span><wbr><span>Ord</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html
new file mode 100644
index 00000000..6b73034d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-n/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastN/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastN</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html
new file mode 100644
index 00000000..140ff060
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html
@@ -0,0 +1,4383 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastP</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastP///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>P</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">BlastP</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html"><span>aligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html"><span>aligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr><span>Long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html"><span>block</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Gap</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Skip</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr><span>Multi</span><wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">compress</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html"><span>custom</span><wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr><span>Map</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html"><span>frame</span><wbr><span>Shift</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr><span>Standard</span><wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html"><span>gap</span><wbr><span>Extend</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html"><span>gap</span><wbr><span>Open</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html"><span>global</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html"><span>include</span><wbr><span>All</span><wbr><span>Subject</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html"><span>include</span><wbr><span>Full</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html"><span>index</span><wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr><span>EValue</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html"><span>long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">matrix</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html"><span>max</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr><span>Target</span><wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html"><span>minimum</span><wbr><span>Identity</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html"><span>minimum</span><wbr><span>Query</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html"><span>minimum</span><wbr><span>Subject</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html"><span>min</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr><span>Query</span><wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html"><span>no</span><wbr><span>Self</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html"><span>parallel</span><wbr><span>Tmp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html"><span>query</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr><span>Or</span><wbr><span>Subject</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr><span>Parallel</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html"><span>range</span><wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr><span>Query</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html"><span>seq</span><wbr><span>Id</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html"><span>skip</span><wbr><span>Missing</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr><span>Match</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">strand</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html"><span>taxon</span><wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html"><span>taxon</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-780234571%2FProperties%2F769193423" anchor-label="tool" id="-780234571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-780234571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html"><span>unaligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html"><span>unaligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr><span>Bl</span><wbr><span>Ord</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html
new file mode 100644
index 00000000..4154dea0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-p/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastP/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastP</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html
new file mode 100644
index 00000000..425328b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html
@@ -0,0 +1,4383 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastX</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastX///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">BlastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>X</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">BlastX</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html"><span>aligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html"><span>aligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html"><span>align</span><wbr><span>Long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html"><span>block</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html"><span>chaining</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Gap</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Skip</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html"><span>check</span><wbr><span>Multi</span><wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">compress</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html"><span>culling</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html"><span>custom</span><wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html"><span>cut</span><wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">extension</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html"><span>family</span><wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html"><span>family</span><wbr><span>Map</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html"><span>frame</span><wbr><span>Shift</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html"><span>freq</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html"><span>freq</span><wbr><span>Standard</span><wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html"><span>gap</span><wbr><span>Extend</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html"><span>gap</span><wbr><span>Open</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html"><span>global</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html"><span>include</span><wbr><span>All</span><wbr><span>Subject</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html"><span>include</span><wbr><span>Full</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html"><span>index</span><wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html"><span>lin</span><wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html"><span>log</span><wbr><span>EValue</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html"><span>long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">matrix</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html"><span>max</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr><span>Target</span><wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html"><span>minimum</span><wbr><span>Identity</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html"><span>minimum</span><wbr><span>Query</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html"><span>minimum</span><wbr><span>Subject</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html"><span>min</span><wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html"><span>min</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html"><span>mp</span><wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html"><span>mp</span><wbr><span>Query</span><wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html"><span>mp</span><wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html"><span>mp</span><wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html"><span>no</span><wbr><span>Self</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html"><span>parallel</span><wbr><span>Tmp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html"><span>query</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html"><span>query</span><wbr><span>Or</span><wbr><span>Subject</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html"><span>query</span><wbr><span>Parallel</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html"><span>range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html"><span>range</span><wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html"><span>repetition</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html"><span>roc</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html"><span>sam</span><wbr><span>Query</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html"><span>seed</span><wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html"><span>seq</span><wbr><span>Id</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html"><span>shape</span><wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html"><span>skip</span><wbr><span>Missing</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html"><span>stop</span><wbr><span>Match</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">strand</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html"><span>target</span><wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html"><span>taxon</span><wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html"><span>taxon</span><wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html"><span>taxon</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2026164925%2FProperties%2F769193423" anchor-label="tool" id="2026164925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2026164925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html"><span>unaligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html"><span>unaligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html"><span>unaligned</span><wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html"><span>x</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html"><span>xml</span><wbr><span>Bl</span><wbr><span>Ord</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html"><span>z</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html
new file mode 100644
index 00000000..00ee0e04
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-blast-x/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/BlastX/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">BlastX</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html
new file mode 100644
index 00000000..5b40bef6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html
@@ -0,0 +1,2823 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusterRealign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/ClusterRealign///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">ClusterRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cluster</span><wbr><span><span>Realign</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusterRealign</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1397986741%2FProperties%2F769193423" anchor-label="tool" id="1397986741%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1397986741%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html
new file mode 100644
index 00000000..03dc5085
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster-realign/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/ClusterRealign/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">ClusterRealign</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html
new file mode 100644
index 00000000..4c3bf736
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html
@@ -0,0 +1,3093 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cluster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/Cluster///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">Cluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">Cluster</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1137818967%2FProperties%2F769193423" anchor-label="tool" id="-1137818967%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1137818967%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html
new file mode 100644
index 00000000..ab2fd3fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-cluster/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/Cluster/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">Cluster</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html
new file mode 100644
index 00000000..8352defb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html
@@ -0,0 +1,2673 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBInfo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DBInfo///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DBInfo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBInfo</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">DBInfo</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1077330295%2FProperties%2F769193423" anchor-label="tool" id="-1077330295%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1077330295%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html
new file mode 100644
index 00000000..13bd39b0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-d-b-info/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DBInfo/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DBInfo</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html
new file mode 100644
index 00000000..576a7f1e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html
@@ -0,0 +1,3093 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DeepClustering</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DeepClustering///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DeepClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Deep</span><wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">DeepClustering</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888279313%2FProperties%2F769193423" anchor-label="tool" id="888279313%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888279313%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html
new file mode 100644
index 00000000..ab5fe20f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-deep-clustering/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DeepClustering/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DeepClustering</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html
new file mode 100644
index 00000000..8ded7a00
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondCommandConfig</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">DiamondCommandConfig</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr><span>Command</span><wbr><span><span>Config</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">interface </span><a href="index.html">DiamondCommandConfig</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1652776150%2FProperties%2F769193423" anchor-label="tool" id="1652776150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1652776150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html
new file mode 100644
index 00000000..13ce1f24
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-diamond-command-config/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/DiamondCommandConfig/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">DiamondCommandConfig</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html
new file mode 100644
index 00000000..c232da29
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html
@@ -0,0 +1,2703 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GetSeq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">GetSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Get</span><wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GetSeq</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1057984387%2FProperties%2F769193423" anchor-label="seq" id="-1057984387%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seq.html"><span><span>seq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1057984387%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq.html">seq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Space-separated list of sequence numbers to display.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-866153274%2FProperties%2F769193423" anchor-label="tool" id="-866153274%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-866153274%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html
new file mode 100644
index 00000000..6c62c78d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/seq.html">v0.2.0</a><a href="seq.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq/seq/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GetSeq</a><span class="delimiter">/</span><span class="current">seq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>seq</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq.html">seq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a><span class="token operator">&gt;</span></div><p class="paragraph">Space-separated list of sequence numbers to display.</p><p class="paragraph">Flag: <code class="lang-kotlin">--seq</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html
new file mode 100644
index 00000000..8d87e00d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-get-seq/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GetSeq/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GetSeq</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html
new file mode 100644
index 00000000..f8c7f837
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>centroidOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/centroid-out.html">v0.2.0</a><a href="centroid-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/centroidOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">centroidOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>centroid</span><wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-out.html">centroidOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Output file for centroids</p><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html
new file mode 100644
index 00000000..7af560cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>connectedComponentDepth</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/connected-component-depth.html">v0.2.0</a><a href="connected-component-depth.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/connectedComponentDepth/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">connectedComponentDepth</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>connected</span><wbr><span>Component</span><wbr><span><span>Depth</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="connected-component-depth.html">connectedComponentDepth</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Depth to cluster connected components.</p><p class="paragraph">Flag: <code class="lang-kotlin">--connected-component-depth</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html
new file mode 100644
index 00000000..22d56e0f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>edgeFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edge-format.html">v0.2.0</a><a href="edge-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/edgeFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">edgeFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>edge</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edge-format.html">edgeFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div><p class="paragraph">Edge format for greedy vertex cover.</p><p class="paragraph">Flag: <code class="lang-kotlin">--edge-format</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html
new file mode 100644
index 00000000..8e7a79a1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>edges</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/edges.html">v0.2.0</a><a href="edges.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/edges/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">edges</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>edges</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edges.html">edges</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Input file for greedy vertex cover</p><p class="paragraph">Flag: <code class="lang-kotlin">--edges</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..562411de
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html
@@ -0,0 +1,2838 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr><span>Vortex</span><wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GreedyVortexCover</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-552239172%2FProperties%2F769193423" anchor-label="centroidOut" id="-552239172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="centroid-out.html"><span>centroid</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-552239172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-out.html">centroidOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Output file for centroids</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="203786651%2FProperties%2F769193423" anchor-label="connectedComponentDepth" id="203786651%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="connected-component-depth.html"><span>connected</span><wbr><span>Component</span><wbr><span><span>Depth</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="203786651%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="connected-component-depth.html">connectedComponentDepth</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Depth to cluster connected components.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1903393500%2FProperties%2F769193423" anchor-label="edgeFormat" id="1903393500%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="edge-format.html"><span>edge</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1903393500%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edge-format.html">edgeFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div><div class="brief "><p class="paragraph">Edge format for greedy vertex cover.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="782432660%2FProperties%2F769193423" anchor-label="edges" id="782432660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="edges.html"><span><span>edges</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="782432660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="edges.html">edges</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Input file for greedy vertex cover</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1188511757%2FProperties%2F769193423" anchor-label="noReassign" id="1188511757%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reassign.html"><span>no</span><wbr><span><span>Reassign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1188511757%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reassign.html">noReassign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not reassign to the closest representative.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851415379%2FProperties%2F769193423" anchor-label="symmetric" id="851415379%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="symmetric.html"><span><span>symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851415379%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="symmetric.html">symmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Edges are symmetric</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1839226856%2FProperties%2F769193423" anchor-label="tool" id="-1839226856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1839226856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html
new file mode 100644
index 00000000..f419e6fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReassign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/no-reassign.html">v0.2.0</a><a href="no-reassign.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/noReassign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">noReassign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Reassign</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reassign.html">noReassign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not reassign to the closest representative.</p><p class="paragraph">Flag: <code class="lang-kotlin">--no-reassign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html
new file mode 100644
index 00000000..a0452ca1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>symmetric</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/symmetric.html">v0.2.0</a><a href="symmetric.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/symmetric/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">symmetric</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>symmetric</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="symmetric.html">symmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Edges are symmetric</p><p class="paragraph">Flag: <code class="lang-kotlin">--symmetric</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html
new file mode 100644
index 00000000..9a1f8e53
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/GreedyVortexCover/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">GreedyVortexCover</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html
new file mode 100644
index 00000000..8f4acea2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html
@@ -0,0 +1,3093 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LinearCluster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/LinearCluster///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">LinearCluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Linear</span><wbr><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">LinearCluster</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-969146428%2FProperties%2F769193423" anchor-label="tool" id="-969146428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-969146428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html
new file mode 100644
index 00000000..3aab9b74
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-linear-cluster/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/LinearCluster/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">LinearCluster</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html
new file mode 100644
index 00000000..86c0d7be
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html
@@ -0,0 +1,2793 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeDB</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MakeDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MakeDB</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1626615411%2FProperties%2F769193423" anchor-label="inputFile" id="1626615411%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-file.html"><span>input</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1626615411%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the input protein reference database file in FASTA format (may be gzip compressed).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2063520045%2FProperties%2F769193423" anchor-label="taxonMapFile" id="-2063520045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-map-file.html"><span>taxon</span><wbr><span>Map</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2063520045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-map-file.html">taxonMapFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to mapping file that maps NCBI protein accession numbers to taxon ids (gzip compressed).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="513919207%2FProperties%2F769193423" anchor-label="taxonNamesFile" id="513919207%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-names-file.html"><span>taxon</span><wbr><span>Names</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="513919207%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-names-file.html">taxonNamesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the <code class="lang-kotlin">names.dmp</code> file from the NCBI taxonomy.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="918278686%2FProperties%2F769193423" anchor-label="taxonNodesFile" id="918278686%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-nodes-file.html"><span>taxon</span><wbr><span>Nodes</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="918278686%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-nodes-file.html">taxonNodesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the <code class="lang-kotlin">nodes.dmp</code> file from the NCBI taxonomy.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="948974409%2FProperties%2F769193423" anchor-label="tool" id="948974409%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="948974409%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html
new file mode 100644
index 00000000..2c5c49b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
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+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/input-file.html">v0.2.0</a><a href="input-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/inputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">inputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the input protein reference database file in FASTA format (may be gzip compressed).</p><p class="paragraph">If this parameter is omitted, the input will be read from stdin.</p><p class="paragraph">Flag: <code class="lang-kotlin">--in</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html
new file mode 100644
index 00000000..68e8e33a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonMapFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-map-file.html">v0.2.0</a><a href="taxon-map-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonMapFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonMapFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span>Map</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-map-file.html">taxonMapFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to mapping file that maps NCBI protein accession numbers to taxon ids (gzip compressed).</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">A file can be downloaded from NCBI, or a custom file following the same format may be supplied here. Note that the first line of this file is assumed to contain headings and will be ignored.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonmap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html
new file mode 100644
index 00000000..6573c97f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonNamesFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-names-file.html">v0.2.0</a><a href="taxon-names-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonNamesFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonNamesFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span>Names</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-names-file.html">taxonNamesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the <code class="lang-kotlin">names.dmp</code> file from the NCBI taxonomy.</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">The file is contained within this archive downloadable at NCBI.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonnames</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html
new file mode 100644
index 00000000..50e26ca5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonNodesFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/taxon-nodes-file.html">v0.2.0</a><a href="taxon-nodes-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/taxonNodesFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">taxonNodesFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span>Nodes</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-nodes-file.html">taxonNodesFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the <code class="lang-kotlin">nodes.dmp</code> file from the NCBI taxonomy.</p><p class="paragraph">This parameter is optional and needs to be supplied in order to provide taxonomy features.</p><p class="paragraph">The file is contained within this archive downloadable at NCBI.</p><p class="paragraph">Flag: <code class="lang-kotlin">--taxonnodes</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html
new file mode 100644
index 00000000..aa1eefec
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-d-b/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeDB/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeDB</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html
new file mode 100644
index 00000000..bf1cca28
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html
@@ -0,0 +1,2823 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeIndex</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeIndex///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MakeIndex</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr><span><span>Index</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MakeIndex</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html"><span>mid</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html"><span>more</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803391603%2FProperties%2F769193423" anchor-label="tool" id="803391603%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803391603%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html"><span>ultra</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html"><span>very</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html
new file mode 100644
index 00000000..714d40ea
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-make-index/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MakeIndex/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MakeIndex</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html
new file mode 100644
index 00000000..b357dc84
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html
@@ -0,0 +1,2688 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MergeDAA</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">MergeDAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Merge</span><wbr><span><span>DAA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">MergeDAA</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-564912588%2FProperties%2F769193423" anchor-label="inputFiles" id="-564912588%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-files.html"><span>input</span><wbr><span><span>Files</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-564912588%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-files.html">inputFiles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="338635465%2FProperties%2F769193423" anchor-label="tool" id="338635465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="338635465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html
new file mode 100644
index 00000000..d680846c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFiles</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/input-files.html">v0.2.0</a><a href="input-files.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA/inputFiles/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MergeDAA</a><span class="delimiter">/</span><span class="current">inputFiles</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr><span><span>Files</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-files.html">inputFiles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html
new file mode 100644
index 00000000..d1ae6374
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/MergeDAA/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">MergeDAA</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html
new file mode 100644
index 00000000..f95f10ae
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html
@@ -0,0 +1,2673 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PrepDB</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/PrepDB///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">PrepDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Prep</span><wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">PrepDB</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1664684936%2FProperties%2F769193423" anchor-label="tool" id="1664684936%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1664684936%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html
new file mode 100644
index 00000000..f7f8c9fd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-prep-d-b/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/PrepDB/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">PrepDB</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html
new file mode 100644
index 00000000..4c0b58e3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html
@@ -0,0 +1,3048 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReassignClusters</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/ReassignClusters///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">ReassignClusters</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reassign</span><wbr><span><span>Clusters</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ReassignClusters</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="294249496%2FProperties%2F769193423" anchor-label="tool" id="294249496%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294249496%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html
new file mode 100644
index 00000000..f416a970
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/ReassignClusters/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">ReassignClusters</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html
new file mode 100644
index 00000000..23664def
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html
@@ -0,0 +1,3048 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RecomputeClustering</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/RecomputeClustering///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">RecomputeClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Recompute</span><wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">RecomputeClustering</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html"><span>clusters</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html"><span>cluster</span><wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html"><span>kmer</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">masking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html"><span>round</span><wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1361622299%2FProperties%2F769193423" anchor-label="tool" id="1361622299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1361622299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html
new file mode 100644
index 00000000..f43d2c72
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/RecomputeClustering/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">RecomputeClustering</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html
new file mode 100644
index 00000000..38a34d83
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>forwardOnly</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/forward-only.html">v0.2.0</a><a href="forward-only.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/forwardOnly/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">forwardOnly</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>forward</span><wbr><span><span>Only</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="forward-only.html">forwardOnly</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only show alignments of forward strand.</p><p class="paragraph">Flag: <code class="lang-kotlin">--forwardonly</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html
new file mode 100644
index 00000000..c7b1f97b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html
@@ -0,0 +1,2808 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>View</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/View///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><span class="current">View</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>View</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">View</a> : <a href="../-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">dbType</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="987189327%2FProperties%2F769193423" anchor-label="forwardOnly" id="987189327%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="forward-only.html"><span>forward</span><wbr><span><span>Only</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="987189327%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="forward-only.html">forwardOnly</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only show alignments of forward strand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">header</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html"><span>include</span><wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1217093210%2FProperties%2F769193423" anchor-label="inputFile" id="1217093210%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="input-file.html"><span>input</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1217093210%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html"><span>max</span><wbr><span>Target</span><wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html"><span>output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-430543102%2FProperties%2F769193423" anchor-label="tool" id="-430543102%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tool.html"><span><span>tool</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-430543102%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Diamond subcommand.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">type</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="../../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html
new file mode 100644
index 00000000..ef73466a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>inputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/input-file.html">v0.2.0</a><a href="input-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/inputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">inputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>input</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="input-file.html">inputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html
new file mode 100644
index 00000000..9b355bd6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tool</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/-view/tool.html">v0.2.0</a><a href="tool.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands/View/tool/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.commands</a><span class="delimiter">/</span><a href="index.html">View</a><span class="delimiter">/</span><span class="current">tool</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tool</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="tool.html">tool</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-command/index.html">DiamondCommand</a></div><p class="paragraph">Diamond subcommand.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html
new file mode 100644
index 00000000..66d7b0c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html
@@ -0,0 +1,362 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.commands</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.commands////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.commands</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-2128169164%2FClasslikes%2F769193423" anchor-label="BlastN" id="-2128169164%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-n/index.html"><span>Blast</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2128169164%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">interface </span><a href="-blast-n/index.html">BlastN</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2066129550%2FClasslikes%2F769193423" anchor-label="BlastP" id="-2066129550%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-p/index.html"><span>Blast</span><wbr><span><span>P</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2066129550%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-blast-p/index.html">BlastP</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1817971094%2FClasslikes%2F769193423" anchor-label="BlastX" id="-1817971094%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-x/index.html"><span>Blast</span><wbr><span><span>X</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1817971094%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-blast-x/index.html">BlastX</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1492599550%2FClasslikes%2F769193423" anchor-label="Cluster" id="1492599550%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster/index.html"><span><span>Cluster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1492599550%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cluster/index.html">Cluster</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="959789170%2FClasslikes%2F769193423" anchor-label="ClusterRealign" id="959789170%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster-realign/index.html"><span>Cluster</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="959789170%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cluster-realign/index.html">ClusterRealign</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363223838%2FClasslikes%2F769193423" anchor-label="DBInfo" id="363223838%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-info/index.html"><span><span>DBInfo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363223838%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-d-b-info/index.html">DBInfo</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2119570326%2FClasslikes%2F769193423" anchor-label="DeepClustering" id="2119570326%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deep-clustering/index.html"><span>Deep</span><wbr><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2119570326%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-deep-clustering/index.html">DeepClustering</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="811319473%2FClasslikes%2F769193423" anchor-label="DiamondCommandConfig" id="811319473%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-command-config/index.html"><span>Diamond</span><wbr><span>Command</span><wbr><span><span>Config</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="811319473%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">interface </span><a href="-diamond-command-config/index.html">DiamondCommandConfig</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1061332287%2FClasslikes%2F769193423" anchor-label="GetSeq" id="-1061332287%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-get-seq/index.html"><span>Get</span><wbr><span><span>Seq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1061332287%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-get-seq/index.html">GetSeq</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1521550289%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="-1521550289%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html"><span>Greedy</span><wbr><span>Vortex</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1521550289%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-158826237%2FClasslikes%2F769193423" anchor-label="LinearCluster" id="-158826237%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-linear-cluster/index.html"><span>Linear</span><wbr><span><span>Cluster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-158826237%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-linear-cluster/index.html">LinearCluster</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-66490786%2FClasslikes%2F769193423" anchor-label="MakeDB" id="-66490786%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-d-b/index.html"><span>Make</span><wbr><span><span>DB</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-66490786%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-make-d-b/index.html">MakeDB</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-201013516%2FClasslikes%2F769193423" anchor-label="MakeIndex" id="-201013516%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-index/index.html"><span>Make</span><wbr><span><span>Index</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-201013516%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-make-index/index.html">MakeIndex</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-540162338%2FClasslikes%2F769193423" anchor-label="MergeDAA" id="-540162338%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-merge-d-a-a/index.html"><span>Merge</span><wbr><span><span>DAA</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-540162338%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-merge-d-a-a/index.html">MergeDAA</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1487461697%2FClasslikes%2F769193423" anchor-label="PrepDB" id="-1487461697%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-prep-d-b/index.html"><span>Prep</span><wbr><span><span>DB</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1487461697%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-prep-d-b/index.html">PrepDB</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1647691729%2FClasslikes%2F769193423" anchor-label="ReassignClusters" id="-1647691729%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reassign-clusters/index.html"><span>Reassign</span><wbr><span><span>Clusters</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1647691729%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-reassign-clusters/index.html">ReassignClusters</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="924291404%2FClasslikes%2F769193423" anchor-label="RecomputeClustering" id="924291404%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-recompute-clustering/index.html"><span>Recompute</span><wbr><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="924291404%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-recompute-clustering/index.html">RecomputeClustering</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1104741125%2FClasslikes%2F769193423" anchor-label="View" id="1104741125%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view/index.html"><span><span>View</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1104741125%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-view/index.html">View</a> : <a href="-diamond-command-config/index.html">DiamondCommandConfig</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">GeneralOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">GeneralDBOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">GeneralOutputOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">AlignerViewOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">OutputFormatOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">ViewAlignOptionContainer</a>, <a href="../org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html
new file mode 100644
index 00000000..f19ad492
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-fields.html">v0.2.0</a><a href="format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="index.html">T</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html
new file mode 100644
index 00000000..9cd724eb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/format-type.html">v0.2.0</a><a href="format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html
new file mode 100644
index 00000000..97987e67
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html
@@ -0,0 +1,142 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormatBase</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">BlastTabFormatBase</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Base</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">class </span><a href="index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="index.html">T</a><span class="token operator"> : </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt;</span> : <a href="../-output-format-options/index.html">OutputFormatOptions</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-tab-format/index.html">BlastTabFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-json-flat-format/index.html">JsonFlatFormat</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="963990443%2FProperties%2F769193423" anchor-label="formatFields" id="963990443%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="963990443%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="index.html">T</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html
new file mode 100644
index 00000000..88e8b654
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatBase</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html
new file mode 100644
index 00000000..374b2439
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>APPROX_PIDENT</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.APPROX_PIDENT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">APPROX_PIDENT</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>APPROX_PIDENT</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">APPROX_PIDENT</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-quality-values/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-quality-values/index.html
new file mode 100644
index 00000000..164131e0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-quality-values/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedQueryQualityValues</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-quality-values/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AlignedQueryQualityValues</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr><span>Query</span><wbr><span>Quality</span><wbr><span><span>Values</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedQueryQualityValues</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-sequence/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-sequence/index.html
new file mode 100644
index 00000000..87e2ea64
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-sequence/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedQuerySequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AlignedQuerySequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr><span>Query</span><wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedQuerySequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-subject-sequence/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-subject-sequence/index.html
new file mode 100644
index 00000000..d79a2bba
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-subject-sequence/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignedSubjectSequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-subject-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AlignedSubjectSequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligned</span><wbr><span>Subject</span><wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignedSubjectSequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-alignment-length/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-alignment-length/index.html
new file mode 100644
index 00000000..7b618542
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-alignment-length/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignmentLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-alignment-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignmentLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AlignmentLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alignment</span><wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlignmentLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-accesions/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-accesions/index.html
new file mode 100644
index 00000000..2eb33c80
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-accesions/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectAccesions</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-accesions/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectAccesions///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AllSubjectAccesions</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr><span>Subject</span><wbr><span><span>Accesions</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectAccesions</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-g-is/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-g-is/index.html
new file mode 100644
index 00000000..0c3e47d0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-g-is/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectGIs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-g-is/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectGIs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AllSubjectGIs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr><span>Subject</span><wbr><span><span>GIs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectGIs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-sequence-i-ds/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-sequence-i-ds/index.html
new file mode 100644
index 00000000..cd7e5b20
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-sequence-i-ds/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectSequenceIDs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-sequence-i-ds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectSequenceIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AllSubjectSequenceIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>IDs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectSequenceIDs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-titles/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-titles/index.html
new file mode 100644
index 00000000..7c14d426
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-titles/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AllSubjectTitles</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-titles/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectTitles///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">AllSubjectTitles</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>All</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AllSubjectTitles</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-bit-score/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-bit-score/index.html
new file mode 100644
index 00000000..66bffa78
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-bit-score/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">BitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bit</span><wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-blast-traceback-operations/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-blast-traceback-operations/index.html
new file mode 100644
index 00000000..41325573
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-blast-traceback-operations/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTracebackOperations</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-blast-traceback-operations/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.BlastTracebackOperations///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">BlastTracebackOperations</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Traceback</span><wbr><span><span>Operations</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastTracebackOperations</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-c-i-g-a-r/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-c-i-g-a-r/index.html
new file mode 100644
index 00000000..1c72abee
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-c-i-g-a-r/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CIGAR</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-c-i-g-a-r/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.CIGAR///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">CIGAR</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>CIGAR</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CIGAR</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-json.html
new file mode 100644
index 00000000..e0f7bc5a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BlastTabFormatField</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-string.html
new file mode 100644
index 00000000..faa26cf5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BlastTabFormatField</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/index.html
new file mode 100644
index 00000000..f853d7cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="412431585%2FFunctions%2F769193423" anchor-label="fromJson" id="412431585%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="412431585%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BlastTabFormatField</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1138907637%2FFunctions%2F769193423" anchor-label="fromString" id="1138907637%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1138907637%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BlastTabFormatField</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-corrected-bit-score/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-corrected-bit-score/index.html
new file mode 100644
index 00000000..5c344b3e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-corrected-bit-score/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CorrectedBitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-corrected-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.CorrectedBitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">CorrectedBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Corrected</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CorrectedBitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-e-x-t_-c-o-u-n-t/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-e-x-t_-c-o-u-n-t/index.html
new file mode 100644
index 00000000..7ec5bb04
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-e-x-t_-c-o-u-n-t/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EXT_COUNT</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-e-x-t_-c-o-u-n-t/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.EXT_COUNT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">EXT_COUNT</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>EXT_COUNT</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EXT_COUNT</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-expect-value/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-expect-value/index.html
new file mode 100644
index 00000000..51fdae0b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-expect-value/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExpectValue</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-expect-value/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.ExpectValue///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">ExpectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Expect</span><wbr><span><span>Value</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ExpectValue</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-frames/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-frames/index.html
new file mode 100644
index 00000000..d5da09d5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-frames/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Frames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-frames/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Frames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Frames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Frames</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Frames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-quality-values/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-quality-values/index.html
new file mode 100644
index 00000000..840869e2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-quality-values/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQueryQualityValues</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-quality-values/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">FullQueryQualityValues</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr><span>Query</span><wbr><span>Quality</span><wbr><span><span>Values</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQueryQualityValues</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence-of-mate/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence-of-mate/index.html
new file mode 100644
index 00000000..f753d94d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence-of-mate/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQuerySequenceOfMate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence-of-mate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQuerySequenceOfMate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">FullQuerySequenceOfMate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr><span>Query</span><wbr><span>Sequence</span><wbr><span>Of</span><wbr><span><span>Mate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQuerySequenceOfMate</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence/index.html
new file mode 100644
index 00000000..76cacc5f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullQuerySequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">FullQuerySequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr><span>Query</span><wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullQuerySequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-subject-sequence/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-subject-sequence/index.html
new file mode 100644
index 00000000..6a529087
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-subject-sequence/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FullSubjectSequence</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-subject-sequence/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">FullSubjectSequence</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Full</span><wbr><span>Subject</span><wbr><span><span>Sequence</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FullSubjectSequence</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-gap-openings/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-gap-openings/index.html
new file mode 100644
index 00000000..e8ba3645
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-gap-openings/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GapOpenings</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-gap-openings/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.GapOpenings///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">GapOpenings</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Gap</span><wbr><span><span>Openings</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GapOpenings</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-h-s-p-num/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-h-s-p-num/index.html
new file mode 100644
index 00000000..a2a0acad
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-h-s-p-num/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HSPNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-h-s-p-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.HSPNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">HSPNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>HSPNum</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HSPNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-identical-matches/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-identical-matches/index.html
new file mode 100644
index 00000000..209dd934
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-identical-matches/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IdenticalMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-identical-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.IdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">IdenticalMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Identical</span><wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">IdenticalMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-mismatches/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-mismatches/index.html
new file mode 100644
index 00000000..d756f1f0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-mismatches/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mismatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-mismatches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Mismatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Mismatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mismatches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Mismatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-e-g_-e-v-a-l-u-e/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-e-g_-e-v-a-l-u-e/index.html
new file mode 100644
index 00000000..6f3963ec
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-e-g_-e-v-a-l-u-e/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NEG_EVALUE</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-e-g_-e-v-a-l-u-e/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NEG_EVALUE///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">NEG_EVALUE</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>NEG_EVALUE</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NEG_EVALUE</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html
new file mode 100644
index 00000000..166940f7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NW_SEMIGLOBAL</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NW_SEMIGLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">NW_SEMIGLOBAL</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>NW_SEMIGLOBAL</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NW_SEMIGLOBAL</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-global/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-global/index.html
new file mode 100644
index 00000000..5134d01c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-global/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NormalizedBitScoreGlobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NormalizedBitScoreGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">NormalizedBitScoreGlobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Normalized</span><wbr><span>Bit</span><wbr><span>Score</span><wbr><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NormalizedBitScoreGlobal</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-semiglobal/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-semiglobal/index.html
new file mode 100644
index 00000000..d95ec1c1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-semiglobal/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>NormalizedBitScoreSemiglobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-semiglobal/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NormalizedBitScoreSemiglobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">NormalizedBitScoreSemiglobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Normalized</span><wbr><span>Bit</span><wbr><span>Score</span><wbr><span><span>Semiglobal</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">NormalizedBitScoreSemiglobal</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html
new file mode 100644
index 00000000..f1e6b7b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PIDENT_GLOBAL</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PIDENT_GLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">PIDENT_GLOBAL</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PIDENT_GLOBAL</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PIDENT_GLOBAL</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-identical-matches/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-identical-matches/index.html
new file mode 100644
index 00000000..d3087092
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-identical-matches/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PercentIdenticalMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-identical-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PercentIdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">PercentIdenticalMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Percent</span><wbr><span>Identical</span><wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PercentIdenticalMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-positive-scoring-matches/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-positive-scoring-matches/index.html
new file mode 100644
index 00000000..049a8413
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-positive-scoring-matches/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PercentPositiveScoringMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-positive-scoring-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PercentPositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">PercentPositiveScoringMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Percent</span><wbr><span>Positive</span><wbr><span>Scoring</span><wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PercentPositiveScoringMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-positive-scoring-matches/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-positive-scoring-matches/index.html
new file mode 100644
index 00000000..77e77aa6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-positive-scoring-matches/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PositiveScoringMatches</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-positive-scoring-matches/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">PositiveScoringMatches</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Positive</span><wbr><span>Scoring</span><wbr><span><span>Matches</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PositiveScoringMatches</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion-version/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion-version/index.html
new file mode 100644
index 00000000..3c9731f2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion-version/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAccesionVersion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryAccesionVersion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Accesion</span><wbr><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAccesionVersion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion/index.html
new file mode 100644
index 00000000..3e5af7c3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAccesion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryAccesion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Accesion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAccesion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-end/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-end/index.html
new file mode 100644
index 00000000..379f1368
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-end/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAlignmentEnd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-end/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryAlignmentEnd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Alignment</span><wbr><span><span>End</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAlignmentEnd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-start/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-start/index.html
new file mode 100644
index 00000000..6a04fc2a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-start/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryAlignmentStart</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-start/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryAlignmentStart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Alignment</span><wbr><span><span>Start</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryAlignmentStart</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-h-s-p/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-h-s-p/index.html
new file mode 100644
index 00000000..974e0132
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-h-s-p/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerHSP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-h-s-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerHSP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>HSP</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerHSP</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-subject/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-subject/index.html
new file mode 100644
index 00000000..1754d5dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-subject/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerSubject</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-subject/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>Subject</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerSubject</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-unique-subject/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-unique-subject/index.html
new file mode 100644
index 00000000..ec1c0636
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-unique-subject/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryCoveragePerUniqueSubject</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-unique-subject/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerUniqueSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryCoveragePerUniqueSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span>Unique</span><wbr><span><span>Subject</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryCoveragePerUniqueSubject</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-frame/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-frame/index.html
new file mode 100644
index 00000000..24a23fcb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-frame/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryFrame</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-frame/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryFrame</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Frame</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryFrame</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-g-i/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-g-i/index.html
new file mode 100644
index 00000000..b9057694
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-g-i/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryGI</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-g-i/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryGI</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>GI</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryGI</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-num/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-num/index.html
new file mode 100644
index 00000000..e795f508
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-num/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Num</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-gapped/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-gapped/index.html
new file mode 100644
index 00000000..c9e9ce20
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-gapped/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceGapped</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-gapped/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceGapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Gapped</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceGapped</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-i-d/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-i-d/index.html
new file mode 100644
index 00000000..2c1c6d6f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-i-d/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-length/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-length/index.html
new file mode 100644
index 00000000..659fce55
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-length/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-translated/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-translated/index.html
new file mode 100644
index 00000000..f08e72ec
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-translated/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QuerySequenceTranslated</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-translated/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceTranslated///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QuerySequenceTranslated</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Translated</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QuerySequenceTranslated</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-strand/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-strand/index.html
new file mode 100644
index 00000000..12ed1517
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-strand/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryStrand</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryStrand</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-title/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-title/index.html
new file mode 100644
index 00000000..1c9c753c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-title/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryTitle</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-title/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">QueryTitle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Title</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">QueryTitle</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-raw-score/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-raw-score/index.html
new file mode 100644
index 00000000..d81df303
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-raw-score/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RawScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-raw-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.RawScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">RawScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Raw</span><wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RawScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reduced-match-bit-string/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reduced-match-bit-string/index.html
new file mode 100644
index 00000000..34dbf686
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reduced-match-bit-string/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReducedMatchBitString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reduced-match-bit-string/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.ReducedMatchBitString///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">ReducedMatchBitString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reduced</span><wbr><span>Match</span><wbr><span>Bit</span><wbr><span><span>String</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ReducedMatchBitString</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved1/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved1/index.html
new file mode 100644
index 00000000..45b844e0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved1/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reserved1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Reserved1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Reserved1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reserved1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Reserved1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved2/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved2/index.html
new file mode 100644
index 00000000..e1b90607
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved2/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reserved2</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved2/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Reserved2///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Reserved2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reserved2</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Reserved2</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-s-w-diff/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-s-w-diff/index.html
new file mode 100644
index 00000000..8f85a3a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-s-w-diff/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SWDiff</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-s-w-diff/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SWDiff///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SWDiff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>SWDiff</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SWDiff</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion-version/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion-version/index.html
new file mode 100644
index 00000000..167b417e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion-version/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAccesionVersion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectAccesionVersion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Accesion</span><wbr><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAccesionVersion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion/index.html
new file mode 100644
index 00000000..44390b80
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAccesion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectAccesion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Accesion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAccesion</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-end/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-end/index.html
new file mode 100644
index 00000000..6492280a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-end/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAlignmentEnd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-end/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectAlignmentEnd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Alignment</span><wbr><span><span>End</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAlignmentEnd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-start/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-start/index.html
new file mode 100644
index 00000000..3b6f915c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-start/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectAlignmentStart</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-start/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectAlignmentStart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Alignment</span><wbr><span><span>Start</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectAlignmentStart</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-blast-names/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-blast-names/index.html
new file mode 100644
index 00000000..d1e88e2b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-blast-names/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectBlastNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-blast-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectBlastNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectBlastNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Blast</span><wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectBlastNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-common-names/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-common-names/index.html
new file mode 100644
index 00000000..6a0f5b5c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-common-names/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectCommonNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-common-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectCommonNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectCommonNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Common</span><wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectCommonNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-coverage-per-h-s-p/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-coverage-per-h-s-p/index.html
new file mode 100644
index 00000000..8d3be1de
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-coverage-per-h-s-p/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectCoveragePerHSP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-coverage-per-h-s-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectCoveragePerHSP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>HSP</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectCoveragePerHSP</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-frame/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-frame/index.html
new file mode 100644
index 00000000..d8ef327f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-frame/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectFrame</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-frame/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectFrame</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Frame</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectFrame</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-g-i/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-g-i/index.html
new file mode 100644
index 00000000..a8a4083a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-g-i/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectGI</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-g-i/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectGI</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>GI</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectGI</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-kingdoms/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-kingdoms/index.html
new file mode 100644
index 00000000..f24bb86f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-kingdoms/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectKingdoms</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-kingdoms/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectKingdoms</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Kingdoms</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectKingdoms</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-lineages/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-lineages/index.html
new file mode 100644
index 00000000..1d98c60e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-lineages/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectLineages</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-lineages/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectLineages///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectLineages</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Lineages</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectLineages</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-num/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-num/index.html
new file mode 100644
index 00000000..53214559
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-num/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectNum</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-num/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectNum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Num</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectNum</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-phylums/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-phylums/index.html
new file mode 100644
index 00000000..e0aa3ace
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-phylums/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectPhylums</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-phylums/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectPhylums///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectPhylums</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Phylums</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectPhylums</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-scientific-names/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-scientific-names/index.html
new file mode 100644
index 00000000..7277e16c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-scientific-names/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectScientificNames</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-scientific-names/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectScientificNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectScientificNames</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Scientific</span><wbr><span><span>Names</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectScientificNames</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-gapped/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-gapped/index.html
new file mode 100644
index 00000000..a03bc85a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-gapped/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceGapped</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-gapped/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceGapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>Gapped</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceGapped</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-i-d/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-i-d/index.html
new file mode 100644
index 00000000..bc71b73b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-i-d/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-length/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-length/index.html
new file mode 100644
index 00000000..9fba40ed
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-length/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSequenceLength</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-length/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectSequenceLength</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>Length</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSequenceLength</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-strand/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-strand/index.html
new file mode 100644
index 00000000..35792cc6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-strand/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectStrand</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectStrand</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-super-kingdoms/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-super-kingdoms/index.html
new file mode 100644
index 00000000..45c8c53d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-super-kingdoms/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectSuperKingdoms</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-super-kingdoms/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSuperKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectSuperKingdoms</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Super</span><wbr><span><span>Kingdoms</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectSuperKingdoms</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-taxonomy-i-ds/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-taxonomy-i-ds/index.html
new file mode 100644
index 00000000..6e784dad
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-taxonomy-i-ds/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectTaxonomyIDs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-taxonomy-i-ds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectTaxonomyIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectTaxonomyIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span>Taxonomy</span><wbr><span><span>IDs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectTaxonomyIDs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-title/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-title/index.html
new file mode 100644
index 00000000..ff1dd453
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-title/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SubjectTitle</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-title/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">SubjectTitle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Subject</span><wbr><span><span>Title</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SubjectTitle</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-time/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-time/index.html
new file mode 100644
index 00000000..4ed8e744
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-time/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Time</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-time/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Time///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">Time</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Time</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Time</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-total-gaps/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-total-gaps/index.html
new file mode 100644
index 00000000..7bb30f6c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-total-gaps/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TotalGaps</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-total-gaps/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.TotalGaps///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">TotalGaps</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Total</span><wbr><span><span>Gaps</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">TotalGaps</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-ungapped-score/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-ungapped-score/index.html
new file mode 100644
index 00000000..38aa36bb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-ungapped-score/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UngappedScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-ungapped-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.UngappedScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">UngappedScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ungapped</span><wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">UngappedScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/entries.html
new file mode 100644
index 00000000..ba469a68
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/index.html
new file mode 100644
index 00000000..520e3574
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/index.html
@@ -0,0 +1,1380 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormatField</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">BlastTabFormatField</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Field</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">BlastTabFormatField</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">BlastTabFormatField</a><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="2029267272%2FClasslikes%2F769193423" anchor-label="QuerySequenceID" id="2029267272%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-i-d/index.html">QuerySequenceID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2029267272%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-i-d/index.html">QuerySequenceID</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1704569582%2FClasslikes%2F769193423" anchor-label="QueryGI" id="1704569582%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-g-i/index.html">QueryGI</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1704569582%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-g-i/index.html">QueryGI</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1725670053%2FClasslikes%2F769193423" anchor-label="QueryAccesion" id="1725670053%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-accesion/index.html">QueryAccesion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1725670053%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-accesion/index.html">QueryAccesion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1246460443%2FClasslikes%2F769193423" anchor-label="QueryAccesionVersion" id="1246460443%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
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+                  <div><a href="-query-accesion-version/index.html">QueryAccesionVersion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1246460443%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-accesion-version/index.html">QueryAccesionVersion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1953660557%2FClasslikes%2F769193423" anchor-label="QuerySequenceLength" id="-1953660557%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-length/index.html">QuerySequenceLength</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1953660557%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-length/index.html">QuerySequenceLength</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668011092%2FClasslikes%2F769193423" anchor-label="SubjectSequenceID" id="-668011092%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-sequence-i-d/index.html">SubjectSequenceID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668011092%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-sequence-i-d/index.html">SubjectSequenceID</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="484697552%2FClasslikes%2F769193423" anchor-label="AllSubjectSequenceIDs" id="484697552%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-sequence-i-ds/index.html">AllSubjectSequenceIDs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="484697552%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-sequence-i-ds/index.html">AllSubjectSequenceIDs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1216944978%2FClasslikes%2F769193423" anchor-label="SubjectGI" id="1216944978%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-g-i/index.html">SubjectGI</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1216944978%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-g-i/index.html">SubjectGI</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-821746198%2FClasslikes%2F769193423" anchor-label="AllSubjectGIs" id="-821746198%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-g-is/index.html">AllSubjectGIs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-821746198%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-g-is/index.html">AllSubjectGIs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2120628233%2FClasslikes%2F769193423" anchor-label="SubjectAccesion" id="2120628233%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-accesion/index.html">SubjectAccesion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2120628233%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-accesion/index.html">SubjectAccesion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="647285815%2FClasslikes%2F769193423" anchor-label="SubjectAccesionVersion" id="647285815%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-accesion-version/index.html">SubjectAccesionVersion</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="647285815%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-accesion-version/index.html">SubjectAccesionVersion</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484801709%2FClasslikes%2F769193423" anchor-label="AllSubjectAccesions" id="-484801709%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-all-subject-accesions/index.html">AllSubjectAccesions</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484801709%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-all-subject-accesions/index.html">AllSubjectAccesions</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-33326121%2FClasslikes%2F769193423" anchor-label="SubjectSequenceLength" id="-33326121%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-sequence-length/index.html">SubjectSequenceLength</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-33326121%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-sequence-length/index.html">SubjectSequenceLength</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2008805973%2FClasslikes%2F769193423" anchor-label="QueryAlignmentStart" id="-2008805973%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-alignment-start/index.html">QueryAlignmentStart</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2008805973%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-alignment-start/index.html">QueryAlignmentStart</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1492789852%2FClasslikes%2F769193423" anchor-label="QueryAlignmentEnd" id="-1492789852%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-alignment-end/index.html">QueryAlignmentEnd</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1492789852%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-alignment-end/index.html">QueryAlignmentEnd</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-88471537%2FClasslikes%2F769193423" anchor-label="SubjectAlignmentStart" id="-88471537%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-alignment-start/index.html">SubjectAlignmentStart</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-88471537%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-alignment-start/index.html">SubjectAlignmentStart</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="582949128%2FClasslikes%2F769193423" anchor-label="SubjectAlignmentEnd" id="582949128%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-alignment-end/index.html">SubjectAlignmentEnd</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="582949128%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-alignment-end/index.html">SubjectAlignmentEnd</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1127509431%2FClasslikes%2F769193423" anchor-label="AlignedQuerySequence" id="-1127509431%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligned-query-sequence/index.html">AlignedQuerySequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1127509431%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-query-sequence/index.html">AlignedQuerySequence</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-598347603%2FClasslikes%2F769193423" anchor-label="AlignedSubjectSequence" id="-598347603%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligned-subject-sequence/index.html">AlignedSubjectSequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-598347603%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-subject-sequence/index.html">AlignedSubjectSequence</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-856650916%2FClasslikes%2F769193423" anchor-label="ExpectValue" id="-856650916%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-expect-value/index.html">ExpectValue</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-856650916%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-expect-value/index.html">ExpectValue</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-436171991%2FClasslikes%2F769193423" anchor-label="BitScore" id="-436171991%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bit-score/index.html">BitScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-436171991%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bit-score/index.html">BitScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1511430610%2FClasslikes%2F769193423" anchor-label="RawScore" id="-1511430610%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-raw-score/index.html">RawScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1511430610%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-raw-score/index.html">RawScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1891778131%2FClasslikes%2F769193423" anchor-label="AlignmentLength" id="-1891778131%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alignment-length/index.html">AlignmentLength</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1891778131%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+                <div class="title">
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+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
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+                  <div><a href="-query-coverage-per-subject/index.html">QueryCoveragePerSubject</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="641630403%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-subject/index.html">QueryCoveragePerSubject</a></div></div></div></div>
+                </div>
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+            </div>
+          </div>
+<a data-name="-348506084%2FClasslikes%2F769193423" anchor-label="QueryCoveragePerHSP" id="-348506084%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-coverage-per-h-s-p/index.html">QueryCoveragePerHSP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-348506084%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-h-s-p/index.html">QueryCoveragePerHSP</a></div></div></div></div>
+                </div>
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+            </div>
+          </div>
+<a data-name="-1921990350%2FClasslikes%2F769193423" anchor-label="QueryCoveragePerUniqueSubject" id="-1921990350%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-coverage-per-unique-subject/index.html">QueryCoveragePerUniqueSubject</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1921990350%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-coverage-per-unique-subject/index.html">QueryCoveragePerUniqueSubject</a></div></div></div></div>
+                </div>
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+            </div>
+          </div>
+<a data-name="485198548%2FClasslikes%2F769193423" anchor-label="QueryTitle" id="485198548%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-title/index.html">QueryTitle</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="485198548%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-title/index.html">QueryTitle</a></div></div></div></div>
+                </div>
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+<a data-name="510690061%2FClasslikes%2F769193423" anchor-label="SWDiff" id="510690061%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-s-w-diff/index.html">SWDiff</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="510690061%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-s-w-diff/index.html">SWDiff</a></div></div></div></div>
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+<a data-name="-2109405583%2FClasslikes%2F769193423" anchor-label="Time" id="-2109405583%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-time/index.html">Time</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2109405583%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-time/index.html">Time</a></div></div></div></div>
+                </div>
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+<a data-name="1470186178%2FClasslikes%2F769193423" anchor-label="FullSubjectSequence" id="1470186178%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-subject-sequence/index.html">FullSubjectSequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1470186178%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-subject-sequence/index.html">FullSubjectSequence</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="215706785%2FClasslikes%2F769193423" anchor-label="AlignedQueryQualityValues" id="215706785%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligned-query-quality-values/index.html">AlignedQueryQualityValues</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="215706785%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-aligned-query-quality-values/index.html">AlignedQueryQualityValues</a></div></div></div></div>
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+            </div>
+          </div>
+<a data-name="1604075906%2FClasslikes%2F769193423" anchor-label="QueryNum" id="1604075906%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-num/index.html">QueryNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1604075906%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-num/index.html">QueryNum</a></div></div></div></div>
+                </div>
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+<a data-name="-627384930%2FClasslikes%2F769193423" anchor-label="SubjectNum" id="-627384930%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-num/index.html">SubjectNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-627384930%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-num/index.html">SubjectNum</a></div></div></div></div>
+                </div>
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+<a data-name="1571828352%2FClasslikes%2F769193423" anchor-label="SubjectCoveragePerHSP" id="1571828352%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-coverage-per-h-s-p/index.html">SubjectCoveragePerHSP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1571828352%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-coverage-per-h-s-p/index.html">SubjectCoveragePerHSP</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-285186452%2FClasslikes%2F769193423" anchor-label="FullQueryQualityValues" id="-285186452%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-query-quality-values/index.html">FullQueryQualityValues</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-285186452%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-query-quality-values/index.html">FullQueryQualityValues</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1719769698%2FClasslikes%2F769193423" anchor-label="FullQuerySequence" id="-1719769698%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-query-sequence/index.html">FullQuerySequence</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1719769698%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-query-sequence/index.html">FullQuerySequence</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="77760966%2FClasslikes%2F769193423" anchor-label="QuerySequenceGapped" id="77760966%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-gapped/index.html">QuerySequenceGapped</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="77760966%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-gapped/index.html">QuerySequenceGapped</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1998095402%2FClasslikes%2F769193423" anchor-label="SubjectSequenceGapped" id="1998095402%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-sequence-gapped/index.html">SubjectSequenceGapped</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1998095402%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-sequence-gapped/index.html">SubjectSequenceGapped</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="35804466%2FClasslikes%2F769193423" anchor-label="QueryStrand" id="35804466%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-strand/index.html">QueryStrand</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="35804466%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-strand/index.html">QueryStrand</a></div></div></div></div>
+                </div>
+              </div>
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+          </div>
+<a data-name="-1345478154%2FClasslikes%2F769193423" anchor-label="CIGAR" id="-1345478154%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-c-i-g-a-r/index.html">CIGAR</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1345478154%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-c-i-g-a-r/index.html">CIGAR</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="643012248%2FClasslikes%2F769193423" anchor-label="SubjectKingdoms" id="643012248%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-kingdoms/index.html">SubjectKingdoms</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="643012248%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-kingdoms/index.html">SubjectKingdoms</a></div></div></div></div>
+                </div>
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+<a data-name="808052872%2FClasslikes%2F769193423" anchor-label="SubjectPhylums" id="808052872%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-phylums/index.html">SubjectPhylums</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="808052872%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-phylums/index.html">SubjectPhylums</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1179540516%2FClasslikes%2F769193423" anchor-label="UngappedScore" id="1179540516%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ungapped-score/index.html">UngappedScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1179540516%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ungapped-score/index.html">UngappedScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1353375418%2FClasslikes%2F769193423" anchor-label="FullQuerySequenceOfMate" id="1353375418%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full-query-sequence-of-mate/index.html">FullQuerySequenceOfMate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1353375418%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full-query-sequence-of-mate/index.html">FullQuerySequenceOfMate</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1123887389%2FClasslikes%2F769193423" anchor-label="QuerySequenceTranslated" id="-1123887389%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-sequence-translated/index.html">QuerySequenceTranslated</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1123887389%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-query-sequence-translated/index.html">QuerySequenceTranslated</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1512739557%2FClasslikes%2F769193423" anchor-label="ReducedMatchBitString" id="-1512739557%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reduced-match-bit-string/index.html">ReducedMatchBitString</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512739557%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reduced-match-bit-string/index.html">ReducedMatchBitString</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1775573263%2FClasslikes%2F769193423" anchor-label="NormalizedBitScoreSemiglobal" id="-1775573263%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-normalized-bit-score-semiglobal/index.html">NormalizedBitScoreSemiglobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1775573263%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-normalized-bit-score-semiglobal/index.html">NormalizedBitScoreSemiglobal</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="217615653%2FClasslikes%2F769193423" anchor-label="HSPNum" id="217615653%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-h-s-p-num/index.html">HSPNum</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="217615653%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-h-s-p-num/index.html">HSPNum</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2008581251%2FClasslikes%2F769193423" anchor-label="NormalizedBitScoreGlobal" id="2008581251%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-normalized-bit-score-global/index.html">NormalizedBitScoreGlobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2008581251%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-normalized-bit-score-global/index.html">NormalizedBitScoreGlobal</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-797180250%2FClasslikes%2F769193423" anchor-label="PIDENT_GLOBAL" id="-797180250%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-i-d-e-n-t_-g-l-o-b-a-l/index.html">PIDENT_GLOBAL</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-797180250%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-i-d-e-n-t_-g-l-o-b-a-l/index.html">PIDENT_GLOBAL</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039104085%2FClasslikes%2F769193423" anchor-label="EXT_COUNT" id="2039104085%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-e-x-t_-c-o-u-n-t/index.html">EXT_COUNT</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039104085%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-e-x-t_-c-o-u-n-t/index.html">EXT_COUNT</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1842504853%2FClasslikes%2F769193423" anchor-label="NW_SEMIGLOBAL" id="-1842504853%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-n-w_-s-e-m-i-g-l-o-b-a-l/index.html">NW_SEMIGLOBAL</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1842504853%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-n-w_-s-e-m-i-g-l-o-b-a-l/index.html">NW_SEMIGLOBAL</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1472478569%2FClasslikes%2F769193423" anchor-label="APPROX_PIDENT" id="1472478569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-a-p-p-r-o-x_-p-i-d-e-n-t/index.html">APPROX_PIDENT</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1472478569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-a-p-p-r-o-x_-p-i-d-e-n-t/index.html">APPROX_PIDENT</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1171804302%2FClasslikes%2F769193423" anchor-label="CorrectedBitScore" id="-1171804302%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-corrected-bit-score/index.html">CorrectedBitScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1171804302%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-corrected-bit-score/index.html">CorrectedBitScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="320261343%2FClasslikes%2F769193423" anchor-label="NEG_EVALUE" id="320261343%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-n-e-g_-e-v-a-l-u-e/index.html">NEG_EVALUE</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="320261343%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-n-e-g_-e-v-a-l-u-e/index.html">NEG_EVALUE</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1067189517%2FClasslikes%2F769193423" anchor-label="Reserved1" id="1067189517%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reserved1/index.html">Reserved1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1067189517%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reserved1/index.html">Reserved1</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1297546930%2FClasslikes%2F769193423" anchor-label="Reserved2" id="-1297546930%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reserved2/index.html">Reserved2</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1297546930%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reserved2/index.html">Reserved2</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1202751576%2FClasslikes%2F769193423" anchor-label="SubjectLineages" id="1202751576%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-subject-lineages/index.html">SubjectLineages</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1202751576%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-subject-lineages/index.html">SubjectLineages</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-733254283%2FClasslikes%2F769193423" anchor-label="Companion" id="-733254283%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-733254283%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1617116706%2FProperties%2F769193423" anchor-label="entries" id="-1617116706%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1617116706%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864630417%2FProperties%2F769193423" anchor-label="key" id="-1864630417%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864630417%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-355444672%2FFunctions%2F769193423" anchor-label="toString" id="-355444672%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-355444672%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1358588802%2FFunctions%2F769193423" anchor-label="valueOf" id="-1358588802%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1358588802%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BlastTabFormatField</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="426112522%2FFunctions%2F769193423" anchor-label="values" id="426112522%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426112522%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/key.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/key.html
new file mode 100644
index 00000000..25aea9c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/key.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/key.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="key.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField/key/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">key</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/to-string.html
new file mode 100644
index 00000000..596d941f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/value-of.html
new file mode 100644
index 00000000..11bb9889
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BlastTabFormatField</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/values.html
new file mode 100644
index 00000000..33a3840e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormatField</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html
new file mode 100644
index 00000000..927b344d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/-blast-tab-format.html">v0.2.0</a><a href="-blast-tab-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat/BlastTabFormat/#kotlin.collections.Iterable[org.veupathdb.lib.cli.diamond.opts.output_format.BlastTabFormatField]/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormat</a><span class="delimiter">/</span><span class="current">BlastTabFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Tab</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html
new file mode 100644
index 00000000..822a2a3c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/format-fields.html">v0.2.0</a><a href="format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">BlastTabFormat</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html
new file mode 100644
index 00000000..60621d53
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html
@@ -0,0 +1,161 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTabFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">BlastTabFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Tab</span><wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="index.html">BlastTabFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="CONSTRUCTOR">
+        <h2 class="">Constructors</h2>
+        <div class="table"><a data-name="1342881681%2FConstructors%2F769193423" anchor-label="BlastTabFormat" id="1342881681%2FConstructors%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="CONSTRUCTOR" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format.html"><span>Blast</span><wbr><span>Tab</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1342881681%2FConstructors%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2094857350%2FProperties%2F769193423" anchor-label="formatFields" id="-2094857350%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2094857350%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/format-type.html"><span>format</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../-blast-tab-format-base/format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../-blast-tab-format-base/to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html
new file mode 100644
index 00000000..85c852fc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlatFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/-json-flat-format.html">v0.2.0</a><a href="-json-flat-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat/JsonFlatFormat/#kotlin.collections.Iterable[org.veupathdb.lib.cli.diamond.opts.output_format.BlastTabFormatField]/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">JsonFlatFormat</a><span class="delimiter">/</span><span class="current">JsonFlatFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr><span>Flat</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html
new file mode 100644
index 00000000..6f393eb6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatFields</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/format-fields.html">v0.2.0</a><a href="format-fields.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat/formatFields/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">JsonFlatFormat</a><span class="delimiter">/</span><span class="current">formatFields</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Fields</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html
new file mode 100644
index 00000000..52c79a56
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html
@@ -0,0 +1,161 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlatFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">JsonFlatFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr><span>Flat</span><wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="index.html">JsonFlatFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="CONSTRUCTOR">
+        <h2 class="">Constructors</h2>
+        <div class="table"><a data-name="-55904495%2FConstructors%2F769193423" anchor-label="JsonFlatFormat" id="-55904495%2FConstructors%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="CONSTRUCTOR" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-json-flat-format.html"><span>Json</span><wbr><span>Flat</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-55904495%2FConstructors%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">constructor</span><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2069567618%2FProperties%2F769193423" anchor-label="formatFields" id="-2069567618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-fields.html"><span>format</span><wbr><span><span>Fields</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2069567618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">var </span><a href="format-fields.html">formatFields</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="../-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1757715466%2FProperties%2F769193423" anchor-label="formatType" id="1757715466%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/format-type.html"><span>format</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1757715466%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../-blast-tab-format-base/format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1462545743%2FFunctions%2F769193423" anchor-label="toString" id="1462545743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-blast-tab-format-base/to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1462545743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../-blast-tab-format-base/to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html
new file mode 100644
index 00000000..35991e39
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/format-type.html">v0.2.0</a><a href="format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptions</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html
new file mode 100644
index 00000000..4bc0bd2c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>OutputFormatOptions</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">OutputFormatOptions</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr><span>Format</span><wbr><span><span>Options</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">OutputFormatOptions</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-blast-tab-format-base/index.html">BlastTabFormatBase</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../-simple-output-format/index.html">SimpleOutputFormat</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1497882277%2FProperties%2F769193423" anchor-label="formatType" id="-1497882277%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1497882277%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html
new file mode 100644
index 00000000..2525b7a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Bin1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-bin1/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Bin1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Bin1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Bin1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Bin1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html
new file mode 100644
index 00000000..1ab1e0f4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastTab</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
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+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.BlastTab///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">BlastTab</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>Tab</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastTab</a></div></div></div></div>
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+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html
new file mode 100644
index 00000000..40680fdb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Clustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
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+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-clustering/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Clustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Clustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Clustering</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html
new file mode 100644
index 00000000..f59f9bcf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondAlignmentArchive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.DiamondAlignmentArchive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">DiamondAlignmentArchive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr><span>Alignment</span><wbr><span><span>Archive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DiamondAlignmentArchive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html
new file mode 100644
index 00000000..47715518
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Edge</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Edge///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Edge</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Edge</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Edge</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html
new file mode 100644
index 00000000..7bc4a016
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>JsonFlat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-json-flat/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.JsonFlat///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">JsonFlat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Json</span><wbr><span><span>Flat</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">JsonFlat</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html
new file mode 100644
index 00000000..9e5d27c4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Null</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-null/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Null///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Null</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Null</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Null</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-p-a-f/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-p-a-f/index.html
new file mode 100644
index 00000000..bd78e091
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-p-a-f/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAF</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-p-a-f/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.PAF///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">PAF</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAF</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAF</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html
new file mode 100644
index 00000000..a77e2042
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Pairwise</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Pairwise///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Pairwise</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Pairwise</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Pairwise</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-s-a-m/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-s-a-m/index.html
new file mode 100644
index 00000000..4f3f371b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-s-a-m/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SAM</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-s-a-m/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.SAM///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">SAM</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>SAM</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SAM</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html
new file mode 100644
index 00000000..aaed2daf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Taxon</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-taxon/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Taxon///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">Taxon</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Taxon</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Taxon</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html
new file mode 100644
index 00000000..07fee888
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html
@@ -0,0 +1,217 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>XML</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.XML///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">XML</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>XML</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">XML</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html
new file mode 100644
index 00000000..97f58f26
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>acceptsFormatParams</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/accepts-format-params.html">v0.2.0</a><a href="accepts-format-params.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/acceptsFormatParams/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">acceptsFormatParams</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html
new file mode 100644
index 00000000..0a2e04d6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html
new file mode 100644
index 00000000..c4ad9c79
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hasIntForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html">v0.2.0</a><a href="has-int-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/hasIntForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">hasIntForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html
new file mode 100644
index 00000000..19b1b7d3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hasStringForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
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+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html">v0.2.0</a><a href="has-string-form.html">v0.1.0</a></div>
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+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">hasStringForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
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diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html
new file mode 100644
index 00000000..b79c95de
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+<!doctype html>
+<html class="no-js">
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+    <script>document.documentElement.classList.replace("no-js","js");</script>
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+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
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+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
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+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat///PointingToDeclaration//769193423">
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+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge/index.html">Edge</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200616127%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-edge/index.html">Edge</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1870373532%2FProperties%2F769193423" anchor-label="acceptsFormatParams" id="-1870373532%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="accepts-format-params.html"><span>accepts</span><wbr><span>Format</span><wbr><span><span>Params</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870373532%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="accepts-format-params.html">acceptsFormatParams</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1340667068%2FProperties%2F769193423" anchor-label="entries" id="1340667068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1340667068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1228302997%2FProperties%2F769193423" anchor-label="hasIntForm" id="1228302997%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="has-int-form.html"><span>has</span><wbr><span>Int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1228302997%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-int-form.html">hasIntForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1728005059%2FProperties%2F769193423" anchor-label="hasStringForm" id="-1728005059%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="has-string-form.html"><span>has</span><wbr><span>String</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1728005059%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="has-string-form.html">hasStringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-639975079%2FProperties%2F769193423" anchor-label="intForm" id="-639975079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="int-form.html"><span>int</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-639975079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1118978311%2FProperties%2F769193423" anchor-label="stringForm" id="-1118978311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="string-form.html"><span>string</span><wbr><span><span>Form</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1118978311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="180591249%2FFunctions%2F769193423" anchor-label="toString" id="180591249%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180591249%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="166689376%2FFunctions%2F769193423" anchor-label="valueOf" id="166689376%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="166689376%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">OutputFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1418137748%2FFunctions%2F769193423" anchor-label="values" id="-1418137748%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1418137748%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html
new file mode 100644
index 00000000..20adbf26
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>intForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html">v0.2.0</a><a href="int-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/intForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">intForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>int</span><wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="int-form.html">intForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html
new file mode 100644
index 00000000..b11e0ed5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>stringForm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html">v0.2.0</a><a href="string-form.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/stringForm/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">stringForm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>string</span><wbr><span><span>Form</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="string-form.html">stringForm</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html
new file mode 100644
index 00000000..a71821a5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">preferStringForm<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html
new file mode 100644
index 00000000..a2d4c489
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">OutputFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html
new file mode 100644
index 00000000..57272c20
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">OutputFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">OutputFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html
new file mode 100644
index 00000000..5f5bd186
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Bin1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-bin1.html">v0.2.0</a><a href="-bin1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Bin1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Bin1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Bin1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-bin1.html">Bin1</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html
new file mode 100644
index 00000000..92815aef
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Clustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-clustering.html">v0.2.0</a><a href="-clustering.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Clustering/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Clustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Clustering</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-clustering.html">Clustering</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html
new file mode 100644
index 00000000..779d8493
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DAA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-d-a-a.html">v0.2.0</a><a href="-d-a-a.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/DAA/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">DAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DAA</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-d-a-a.html">DAA</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html
new file mode 100644
index 00000000..28f31e4f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Edge</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-edge.html">v0.2.0</a><a href="-edge.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Edge/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Edge</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Edge</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-edge.html">Edge</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html
new file mode 100644
index 00000000..c2d86ab2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Null</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-null.html">v0.2.0</a><a href="-null.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Null/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Null</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-null.html">Null</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html
new file mode 100644
index 00000000..08c3c4d6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAF</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-p-a-f.html">v0.2.0</a><a href="-p-a-f.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/PAF/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">PAF</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAF</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-p-a-f.html">PAF</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html
new file mode 100644
index 00000000..b30799b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Pairwise</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-pairwise.html">v0.2.0</a><a href="-pairwise.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/Pairwise/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">Pairwise</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Pairwise</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise.html">Pairwise</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html
new file mode 100644
index 00000000..f97f65a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SAM</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-s-a-m.html">v0.2.0</a><a href="-s-a-m.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/SAM/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">SAM</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>SAM</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-s-a-m.html">SAM</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html
new file mode 100644
index 00000000..a5abf2e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TaxonomicClassification</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-taxonomic-classification.html">v0.2.0</a><a href="-taxonomic-classification.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/TaxonomicClassification/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">TaxonomicClassification</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Taxonomic</span><wbr><span><span>Classification</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-taxonomic-classification.html">TaxonomicClassification</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html
new file mode 100644
index 00000000..6310507b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>XML</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/-x-m-l.html">v0.2.0</a><a href="-x-m-l.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion/XML/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">XML</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>XML</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-x-m-l.html">XML</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html
new file mode 100644
index 00000000..3139dc4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html
@@ -0,0 +1,243 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="../index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="669841012%2FProperties%2F769193423" anchor-label="Bin1" id="669841012%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bin1.html"><span><span>Bin1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="669841012%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-bin1.html">Bin1</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="125458390%2FProperties%2F769193423" anchor-label="Clustering" id="125458390%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering.html"><span><span>Clustering</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="125458390%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-clustering.html">Clustering</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-846809832%2FProperties%2F769193423" anchor-label="DAA" id="-846809832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-a-a.html"><span><span>DAA</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-846809832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-d-a-a.html">DAA</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1095439327%2FProperties%2F769193423" anchor-label="Edge" id="-1095439327%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge.html"><span><span>Edge</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1095439327%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-edge.html">Edge</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1542196119%2FProperties%2F769193423" anchor-label="Null" id="1542196119%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-null.html"><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1542196119%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-null.html">Null</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="546417959%2FProperties%2F769193423" anchor-label="PAF" id="546417959%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-f.html"><span><span>PAF</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="546417959%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-p-a-f.html">PAF</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2057586176%2FProperties%2F769193423" anchor-label="Pairwise" id="2057586176%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-pairwise.html"><span><span>Pairwise</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2057586176%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-pairwise.html">Pairwise</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653027%2FProperties%2F769193423" anchor-label="SAM" id="-653027%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-s-a-m.html"><span><span>SAM</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653027%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-s-a-m.html">SAM</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1249981996%2FProperties%2F769193423" anchor-label="TaxonomicClassification" id="-1249981996%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-taxonomic-classification.html"><span>Taxonomic</span><wbr><span><span>Classification</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1249981996%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-taxonomic-classification.html">TaxonomicClassification</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1644078053%2FProperties%2F769193423" anchor-label="XML" id="1644078053%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-x-m-l.html"><span><span>XML</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1644078053%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">val </span><a href="-x-m-l.html">XML</a><span class="token operator">: </span><a href="../index.html">SimpleOutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html
new file mode 100644
index 00000000..890ad38d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>formatType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/format-type.html">v0.2.0</a><a href="format-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat/formatType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">formatType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>format</span><wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html
new file mode 100644
index 00000000..a77a124e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html
@@ -0,0 +1,146 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SimpleOutputFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><span class="current">SimpleOutputFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Simple</span><wbr><span>Output</span><wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-inline/index.html"><span class="token annotation builtin">JvmInline</span></a></div></div><span class="token keyword">value </span><span class="token keyword">class </span><a href="index.html">SimpleOutputFormat</a> : <a href="../-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="279046849%2FClasslikes%2F769193423" anchor-label="Companion" id="279046849%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="279046849%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-257787153%2FProperties%2F769193423" anchor-label="formatType" id="-257787153%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="format-type.html"><span>format</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-257787153%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="format-type.html">formatType</a><span class="token operator">: </span><a href="../-output-format/index.html">OutputFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="508494196%2FFunctions%2F769193423" anchor-label="toString" id="508494196%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="508494196%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html
new file mode 100644
index 00000000..87981959
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a><span class="delimiter">/</span><a href="index.html">SimpleOutputFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html
new file mode 100644
index 00000000..b5f0aa2c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html
@@ -0,0 +1,197 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.opts.output_format</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.opts.output_format</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-747729259%2FClasslikes%2F769193423" anchor-label="BlastTabFormat" id="-747729259%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format/index.html"><span>Blast</span><wbr><span>Tab</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-747729259%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="-blast-tab-format/index.html">BlastTabFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-334970172%2FClasslikes%2F769193423" anchor-label="BlastTabFormatBase" id="-334970172%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format-base/index.html"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Base</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-334970172%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">sealed </span><span class="token keyword">class </span><a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="-blast-tab-format-base/index.html">T</a><span class="token operator"> : </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt;</span> : <a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="662230195%2FClasslikes%2F769193423" anchor-label="BlastTabFormatField" id="662230195%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-tab-format-field/index.html"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="662230195%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1712747537%2FClasslikes%2F769193423" anchor-label="JsonFlatFormat" id="1712747537%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-json-flat-format/index.html"><span>Json</span><wbr><span>Flat</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1712747537%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">class </span><a href="-json-flat-format/index.html">JsonFlatFormat</a><span class="token punctuation">(</span><span class="parameters "><span class="parameter "><span class="token keyword">var </span>formatFields<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator"> = </span>emptyList()</span></span><span class="token punctuation">)</span> : <a href="-blast-tab-format-base/index.html">BlastTabFormatBase</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-iterable/index.html">Iterable</a><span class="token operator">&lt;</span><a href="-blast-tab-format-field/index.html">BlastTabFormatField</a><span class="token operator">&gt;</span><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1352874607%2FClasslikes%2F769193423" anchor-label="OutputFormat" id="-1352874607%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format/index.html"><span>Output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1352874607%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-output-format/index.html">OutputFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-output-format/index.html">OutputFormat</a><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-202152429%2FClasslikes%2F769193423" anchor-label="OutputFormatOptions" id="-202152429%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format-options/index.html"><span>Output</span><wbr><span>Format</span><wbr><span><span>Options</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-202152429%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-561954561%2FClasslikes%2F769193423" anchor-label="SimpleOutputFormat" id="-561954561%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simple-output-format/index.html"><span>Simple</span><wbr><span>Output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-561954561%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-inline/index.html"><span class="token annotation builtin">JvmInline</span></a></div></div><span class="token keyword">value </span><span class="token keyword">class </span><a href="-simple-output-format/index.html">SimpleOutputFormat</a> : <a href="-output-format-options/index.html">OutputFormatOptions</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html
new file mode 100644
index 00000000..365b8d55
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bins</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/bins.html">v0.2.0</a><a href="bins.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/bins/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">bins</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>bins</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of query bins for seed search</p><p class="paragraph">Flag = <code class="lang-kotlin">--bin</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html
new file mode 100644
index 00000000..7912562a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dbSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/db-size.html">v0.2.0</a><a href="db-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/dbSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">dbSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>db</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Effective database size (in letters)</p><p class="paragraph">Flag = <code class="lang-kotlin">--dbsize</code> Default = <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html
new file mode 100644
index 00000000..acb5fcf0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/ext-chunk-size.html">v0.2.0</a><a href="ext-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/extChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">extChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p><p class="paragraph">Flag = <code class="lang-kotlin">--ext-chunk-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html
new file mode 100644
index 00000000..30aca543
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html
@@ -0,0 +1,183 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedClusteringAlignmentOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedClusteringAlignmentOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr><span>Clustering</span><wbr><span>Alignment</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1862057604%2FProperties%2F769193423" anchor-label="bins" id="1862057604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bins.html"><span><span>bins</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1862057604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bins.html">bins</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of query bins for seed search</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="654470097%2FProperties%2F769193423" anchor-label="dbSize" id="654470097%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="db-size.html"><span>db</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654470097%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-size.html">dbSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Effective database size (in letters)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2077834237%2FProperties%2F769193423" anchor-label="extChunkSize" id="-2077834237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ext-chunk-size.html"><span>ext</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2077834237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-chunk-size.html">extChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Chunk size for adaptive ranking (default=auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-697535674%2FProperties%2F769193423" anchor-label="noAutoAppend" id="-697535674%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-auto-append.html"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-697535674%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1679449995%2FProperties%2F769193423" anchor-label="noRanking" id="-1679449995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-ranking.html"><span>no</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1679449995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable ranking heuristic.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="773533719%2FProperties%2F769193423" anchor-label="tantanMinMaskProb" id="773533719%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-min-mask-prob.html"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="773533719%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">minimum repeat probability for masking (default=0.9)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html
new file mode 100644
index 00000000..da8910b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noAutoAppend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-auto-append.html">v0.2.0</a><a href="no-auto-append.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/noAutoAppend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">noAutoAppend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Auto</span><wbr><span><span>Append</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-auto-append.html">noAutoAppend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable auto appending of DAA and DMND file extensions.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-auto-append</code> Default = <code class="lang-kotlin">false</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html
new file mode 100644
index 00000000..367f0679
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/no-ranking.html">v0.2.0</a><a href="no-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/noRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">noRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ranking.html">noRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable ranking heuristic.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-ranking</code> Default = <code class="lang-kotlin">false</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html
new file mode 100644
index 00000000..203f5199
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanMinMaskProb</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-clustering-alignment-option-container/tantan-min-mask-prob.html">v0.2.0</a><a href="tantan-min-mask-prob.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedClusteringAlignmentOptionContainer/tantanMinMaskProb/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedClusteringAlignmentOptionContainer</a><span class="delimiter">/</span><span class="current">tantanMinMaskProb</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr><span>Min</span><wbr><span>Mask</span><wbr><span><span>Prob</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-min-mask-prob.html">tantanMinMaskProb</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">minimum repeat probability for masking (default=0.9)</p><p class="paragraph">Flag = <code class="lang-kotlin">--tantan-minMaskProb</code> Default = <code class="lang-kotlin">0.9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html
new file mode 100644
index 00000000..545548ea
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fileBufferSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/file-buffer-size.html">v0.2.0</a><a href="file-buffer-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/fileBufferSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">fileBufferSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">File buffer size in bytes.</p><p class="paragraph">Flag = <code class="lang-kotlin">--file-buffer-size</code> Default = <code class="lang-kotlin">67108864</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html
new file mode 100644
index 00000000..351ac15b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ignoreWarnings</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/ignore-warnings.html">v0.2.0</a><a href="ignore-warnings.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/ignoreWarnings/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">ignoreWarnings</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ignore</span><wbr><span><span>Warnings</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Ignore warnings</p><p class="paragraph">Flag = <code class="lang-kotlin">--ignore-warnings</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html
new file mode 100644
index 00000000..aa428e88
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html
@@ -0,0 +1,153 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="627358278%2FProperties%2F769193423" anchor-label="fileBufferSize" id="627358278%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file-buffer-size.html"><span>file</span><wbr><span>Buffer</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="627358278%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file-buffer-size.html">fileBufferSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">File buffer size in bytes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="76366458%2FProperties%2F769193423" anchor-label="ignoreWarnings" id="76366458%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ignore-warnings.html"><span>ignore</span><wbr><span><span>Warnings</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="76366458%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ignore-warnings.html">ignoreWarnings</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore warnings</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="927774828%2FProperties%2F769193423" anchor-label="noParseSeqIDs" id="927774828%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-parse-seq-i-ds.html"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="927774828%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Print raw seqids without parsing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-668501393%2FProperties%2F769193423" anchor-label="noUnlink" id="-668501393%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-unlink.html"><span>no</span><wbr><span><span>Unlink</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-668501393%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not unlink temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html
new file mode 100644
index 00000000..ee985161
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noParseSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-parse-seq-i-ds.html">v0.2.0</a><a href="no-parse-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/noParseSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noParseSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Parse</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-parse-seq-i-ds.html">noParseSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Print raw seqids without parsing</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-parse-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html
new file mode 100644
index 00000000..bc967034
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noUnlink</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-general-option-container/no-unlink.html">v0.2.0</a><a href="no-unlink.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedGeneralOptionContainer/noUnlink/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noUnlink</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Unlink</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-unlink.html">noUnlink</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not unlink temporary files.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-unlink</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html
new file mode 100644
index 00000000..eeb2a6a9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>algo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/algo.html">v0.2.0</a><a href="algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/algo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">algo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p><p class="paragraph">TODO: enum this</p><p class="paragraph">Flag = <code class="lang-kotlin">--algo</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html
new file mode 100644
index 00000000..f69d5213
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignLongReads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/align-long-reads.html">v0.2.0</a><a href="align-long-reads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/alignLongReads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">alignLongReads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>align</span><wbr><span>Long</span><wbr><span><span>Reads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use chaining with extension.</p><p class="paragraph">Flag = <code class="lang-kotlin">--align-long-reads</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html
new file mode 100644
index 00000000..069d6d8b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>band</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/band.html">v0.2.0</a><a href="band.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/band/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">band</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>band</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Band for dynamic programming computation</p><p class="paragraph">Flag = <code class="lang-kotlin">--band</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html
new file mode 100644
index 00000000..7728d845
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bootstrap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/bootstrap.html">v0.2.0</a><a href="bootstrap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/bootstrap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">bootstrap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>bootstrap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--bootstrap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html
new file mode 100644
index 00000000..59cb4260
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainPenGapScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-gap-scale.html">v0.2.0</a><a href="chain-pen-gap-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainPenGapScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainPenGapScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chain</span><wbr><span>Pen</span><wbr><span>Gap</span><wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Scaling factor for the chaining gap penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--chain-pen-gap-scale</code> Default = <code class="lang-kotlin">0.8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html
new file mode 100644
index 00000000..bfba355e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainPenSkipScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chain-pen-skip-scale.html">v0.2.0</a><a href="chain-pen-skip-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainPenSkipScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainPenSkipScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chain</span><wbr><span>Pen</span><wbr><span>Skip</span><wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Scaling factor for the chaining skip penalty.</p><p class="paragraph">FLAG NAME TYPO EXISTS IN THE DIAMOND SOURCE CODE!</p><p class="paragraph">Flag = <code class="lang-kotlin">--chain-pen-skip-scalee</code> Default = <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html
new file mode 100644
index 00000000..49964119
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/chaining-out.html">v0.2.0</a><a href="chaining-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/chainingOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">chainingOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use chaining without extension</p><p class="paragraph">Flag = <code class="lang-kotlin">--chaining-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html
new file mode 100644
index 00000000..46108630
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>checkMultiTarget</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/check-multi-target.html">v0.2.0</a><a href="check-multi-target.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/checkMultiTarget/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">checkMultiTarget</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>check</span><wbr><span>Multi</span><wbr><span><span>Target</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--check-multi-target</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html
new file mode 100644
index 00000000..7fd8f6da
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cullingOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/culling-overlap.html">v0.2.0</a><a href="culling-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/cullingOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">cullingOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>culling</span><wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p><p class="paragraph">Flag = <code class="lang-kotlin">--culling-overlap</code> Default = <code class="lang-kotlin">50.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html
new file mode 100644
index 00000000..6bf80e98
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cutBar</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/cut-bar.html">v0.2.0</a><a href="cut-bar.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/cutBar/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">cutBar</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cut</span><wbr><span><span>Bar</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--cut-bar</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html
new file mode 100644
index 00000000..80727930
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extension</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/extension.html">v0.2.0</a><a href="extension.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/extension/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">extension</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>extension</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension.html">extension</a><span class="token operator">: </span><a href="../-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><p class="paragraph">Extension algorithm (wfa, ksw=default)</p><p class="paragraph">Flag = <code class="lang-kotlin">--extension</code> Default = <code class="lang-kotlin">"ksw"</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html
new file mode 100644
index 00000000..12aaa3b9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyMapQuery</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map-query.html">v0.2.0</a><a href="family-map-query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/familyMapQuery/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">familyMapQuery</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr><span>Map</span><wbr><span><span>Query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this? TODO: how is this used?</p><p class="paragraph">File = <code class="lang-kotlin">--family-map-query</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html
new file mode 100644
index 00000000..d11e9253
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyMap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/family-map.html">v0.2.0</a><a href="family-map.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/familyMap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">familyMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr><span><span>Map</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this, a file?</p><p class="paragraph">Flag = <code class="lang-kotlin">--family-map</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html
new file mode 100644
index 00000000..c5a18c56
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-masking.html">v0.2.0</a><a href="freq-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/freqMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">freqMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Mask seeds based on frequency</p><p class="paragraph">Flag = <code class="lang-kotlin">--freq-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html
new file mode 100644
index 00000000..dec97483
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqStandardDeviation</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/freq-standard-deviation.html">v0.2.0</a><a href="freq-standard-deviation.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/freqStandardDeviation/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">freqStandardDeviation</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr><span>Standard</span><wbr><span><span>Deviation</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--freq-sd</code> Default = <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html
new file mode 100644
index 00000000..68d4a810
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterEValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/gapped-filter-e-value.html">v0.2.0</a><a href="gapped-filter-e-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/gappedFilterEValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterEValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">E-value threshold for gapped filter (auto)</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapped-filter-evalue</code> Default = <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html
new file mode 100644
index 00000000..688c787c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>heartbeat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/heartbeat.html">v0.2.0</a><a href="heartbeat.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/heartbeat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">heartbeat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>heartbeat</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--heartbeat</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html
new file mode 100644
index 00000000..8b61974c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>id2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/id2.html">v0.2.0</a><a href="id2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/id2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">id2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>id2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Minimum number of identities for stage 1 hit.</p><p class="paragraph">Flag = <code class="lang-kotlin">--id2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html
new file mode 100644
index 00000000..cc312c78
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html
@@ -0,0 +1,753 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AdvancedQueryOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AdvancedQueryOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Advanced</span><wbr><span>Query</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AdvancedQueryOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="400521104%2FProperties%2F769193423" anchor-label="algo" id="400521104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="algo.html"><span><span>algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="400521104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="algo.html">algo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Seed search algorithm (0=double-indexed/1=query-indexed/ctg=contiguous-seed)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="152757127%2FProperties%2F769193423" anchor-label="alignLongReads" id="152757127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="align-long-reads.html"><span>align</span><wbr><span>Long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="152757127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="align-long-reads.html">alignLongReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining with extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695870446%2FProperties%2F769193423" anchor-label="band" id="1695870446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="band.html"><span><span>band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695870446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band.html">band</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Band for dynamic programming computation</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-115032567%2FProperties%2F769193423" anchor-label="bootstrap" id="-115032567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bootstrap.html"><span><span>bootstrap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-115032567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap.html">bootstrap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570326326%2FProperties%2F769193423" anchor-label="chainingOut" id="-1570326326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-out.html"><span>chaining</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570326326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-out.html">chainingOut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use chaining without extension</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="915372087%2FProperties%2F769193423" anchor-label="chainPenGapScale" id="915372087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chain-pen-gap-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Gap</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="915372087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-gap-scale.html">chainPenGapScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining gap penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-874457404%2FProperties%2F769193423" anchor-label="chainPenSkipScale" id="-874457404%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chain-pen-skip-scale.html"><span>chain</span><wbr><span>Pen</span><wbr><span>Skip</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-874457404%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chain-pen-skip-scale.html">chainPenSkipScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Scaling factor for the chaining skip penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="700283329%2FProperties%2F769193423" anchor-label="checkMultiTarget" id="700283329%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="check-multi-target.html"><span>check</span><wbr><span>Multi</span><wbr><span><span>Target</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="700283329%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="check-multi-target.html">checkMultiTarget</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1033753068%2FProperties%2F769193423" anchor-label="cullingOverlap" id="1033753068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="culling-overlap.html"><span>culling</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1033753068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="culling-overlap.html">cullingOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum range overlap with higher scoring hit to delete a hit (default=50%)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="871109554%2FProperties%2F769193423" anchor-label="cutBar" id="871109554%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cut-bar.html"><span>cut</span><wbr><span><span>Bar</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871109554%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cut-bar.html">cutBar</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="119205208%2FProperties%2F769193423" anchor-label="extension" id="119205208%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="extension.html"><span><span>extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="119205208%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension.html">extension</a><span class="token operator">: </span><a href="../-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Extension algorithm (wfa, ksw=default)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="286728287%2FProperties%2F769193423" anchor-label="familyMap" id="286728287%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-map.html"><span>family</span><wbr><span><span>Map</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="286728287%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map.html">familyMap</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this, a file?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1882840909%2FProperties%2F769193423" anchor-label="familyMapQuery" id="-1882840909%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-map-query.html"><span>family</span><wbr><span>Map</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1882840909%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-map-query.html">familyMapQuery</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this? TODO: how is this used?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="636702745%2FProperties%2F769193423" anchor-label="freqMasking" id="636702745%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-masking.html"><span>freq</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="636702745%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-masking.html">freqMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Mask seeds based on frequency</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-401611637%2FProperties%2F769193423" anchor-label="freqStandardDeviation" id="-401611637%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-standard-deviation.html"><span>freq</span><wbr><span>Standard</span><wbr><span><span>Deviation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-401611637%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-standard-deviation.html">freqStandardDeviation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Number of standard deviations for ignoring frequent seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1998560282%2FProperties%2F769193423" anchor-label="gappedFilterEValue" id="-1998560282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-e-value.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1998560282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value.html">gappedFilterEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">E-value threshold for gapped filter (auto)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-958957765%2FProperties%2F769193423" anchor-label="heartbeat" id="-958957765%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="heartbeat.html"><span><span>heartbeat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-958957765%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="heartbeat.html">heartbeat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1199351200%2FProperties%2F769193423" anchor-label="id2" id="1199351200%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id2.html"><span><span>id2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1199351200%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id2.html">id2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Minimum number of identities for stage 1 hit.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="364062558%2FProperties%2F769193423" anchor-label="linsearch" id="364062558%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="linsearch.html"><span><span>linsearch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="364062558%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="917381715%2FProperties%2F769193423" anchor-label="linStage1" id="917381715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="lin-stage1.html"><span>lin</span><wbr><span><span>Stage1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="917381715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207432073%2FProperties%2F769193423" anchor-label="logEValueScale" id="207432073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-e-value-scale.html"><span>log</span><wbr><span>EValue</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207432073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136571150%2FProperties%2F769193423" anchor-label="minOrf" id="-136571150%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-orf.html"><span>min</span><wbr><span><span>Orf</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136571150%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1130470160%2FProperties%2F769193423" anchor-label="mpInit" id="1130470160%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-init.html"><span>mp</span><wbr><span><span>Init</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1130470160%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Initialize multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1422511877%2FProperties%2F769193423" anchor-label="mpQueryChunk" id="-1422511877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-query-chunk.html"><span>mp</span><wbr><span>Query</span><wbr><span><span>Chunk</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1422511877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Process only a single query chunk as specified</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1126155670%2FProperties%2F769193423" anchor-label="mpRecover" id="1126155670%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-recover.html"><span>mp</span><wbr><span><span>Recover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1126155670%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-80221100%2FProperties%2F769193423" anchor-label="mpSelf" id="-80221100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mp-self.html"><span>mp</span><wbr><span><span>Self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-80221100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="82142635%2FProperties%2F769193423" anchor-label="multiprocessing" id="82142635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="multiprocessing.html"><span><span>multiprocessing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="82142635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">enable distributed-memory parallel processing</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="372133582%2FProperties%2F769193423" anchor-label="penalty" id="372133582%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="penalty.html"><span><span>penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="372133582%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN mismatch penalty</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="34626209%2FProperties%2F769193423" anchor-label="queryOrSubjectCover" id="34626209%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-or-subject-cover.html"><span>query</span><wbr><span>Or</span><wbr><span>Subject</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="34626209%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-111682697%2FProperties%2F769193423" anchor-label="queryParallelLimit" id="-111682697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-parallel-limit.html"><span>query</span><wbr><span>Parallel</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-111682697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1117026615%2FProperties%2F769193423" anchor-label="rangeCover" id="-1117026615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="range-cover.html"><span>range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1117026615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-412628091%2FProperties%2F769193423" anchor-label="repetitionCutoff" id="-412628091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="repetition-cutoff.html"><span>repetition</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-412628091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1132185420%2FProperties%2F769193423" anchor-label="reward" id="-1132185420%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reward.html"><span><span>reward</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1132185420%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">BlastN match reward</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-757592811%2FProperties%2F769193423" anchor-label="rocFile" id="-757592811%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="roc-file.html"><span>roc</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-757592811%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="85187211%2FProperties%2F769193423" anchor-label="samQueryLen" id="85187211%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sam-query-len.html"><span>sam</span><wbr><span>Query</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="85187211%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1019939258%2FProperties%2F769193423" anchor-label="seedCut" id="-1019939258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-cut.html"><span>seed</span><wbr><span><span>Cut</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1019939258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Cutoff for seed complexity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2097798954%2FProperties%2F769193423" anchor-label="shapeMask" id="2097798954%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shape-mask.html"><span>shape</span><wbr><span><span>Mask</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2097798954%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Seed shapes</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="363321460%2FProperties%2F769193423" anchor-label="stopMatchScore" id="363321460%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="stop-match-score.html"><span>stop</span><wbr><span>Match</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="363321460%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Set the match score of stop codons against each other.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1245180311%2FProperties%2F769193423" anchor-label="targetIndexed" id="1245180311%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-indexed.html"><span>target</span><wbr><span><span>Indexed</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1245180311%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable target-indexed mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="618923362%2FProperties%2F769193423" anchor-label="taxonK" id="618923362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-k.html"><span>taxon</span><wbr><span><span>K</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="618923362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Maximum number of targets to report per species.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1318493324%2FProperties%2F769193423" anchor-label="unalignedTargets" id="1318493324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-targets.html"><span>unaligned</span><wbr><span><span>Targets</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1318493324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: What is this?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803319824%2FProperties%2F769193423" anchor-label="xDrop" id="803319824%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="x-drop.html"><span>x</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803319824%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">xDrop for ungapped alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="318325356%2FProperties%2F769193423" anchor-label="xmlBlOrdFormat" id="318325356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="xml-bl-ord-format.html"><span>xml</span><wbr><span>Bl</span><wbr><span>Ord</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="318325356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="825952078%2FProperties%2F769193423" anchor-label="zDrop" id="825952078%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="z-drop.html"><span>z</span><wbr><span><span>Drop</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="825952078%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">zDrop for gapped dna alignment</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html
new file mode 100644
index 00000000..a201183e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>linStage1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/lin-stage1.html">v0.2.0</a><a href="lin-stage1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/linStage1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">linStage1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>lin</span><wbr><span><span>Stage1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="lin-stage1.html">linStage1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only consider seed hits against longest query for identical seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--lin-stage1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html
new file mode 100644
index 00000000..ebc0d083
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>linsearch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/linsearch.html">v0.2.0</a><a href="linsearch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/linsearch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">linsearch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>linsearch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="linsearch.html">linsearch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Only consider seed hits against longest target for identical seeds.</p><p class="paragraph">Flag = <code class="lang-kotlin">--linsearch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html
new file mode 100644
index 00000000..992e2aca
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logEValueScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/log-e-value-scale.html">v0.2.0</a><a href="log-e-value-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/logEValueScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">logEValueScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr><span>EValue</span><wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-e-value-scale.html">logEValueScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--log-evalue-scale</code> Default = <code class="lang-kotlin">1.0 / std::log(2.0)</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html
new file mode 100644
index 00000000..3c8c52d8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minOrf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/min-orf.html">v0.2.0</a><a href="min-orf.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/minOrf/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">minOrf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span><span>Orf</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-orf.html">minOrf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Ignore translated sequences without an open reading frame of at least this length.</p><p class="paragraph">Flag = <code class="lang-kotlin">--min-orf</code> | <code class="lang-kotlin">-l</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html
new file mode 100644
index 00000000..0b60da4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpInit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-init.html">v0.2.0</a><a href="mp-init.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpInit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpInit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr><span><span>Init</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-init.html">mpInit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Initialize multiprocessing run.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-init</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html
new file mode 100644
index 00000000..662f0fd3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpQueryChunk</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-query-chunk.html">v0.2.0</a><a href="mp-query-chunk.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpQueryChunk/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpQueryChunk</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr><span>Query</span><wbr><span><span>Chunk</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-query-chunk.html">mpQueryChunk</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Process only a single query chunk as specified</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-query-chunk</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html
new file mode 100644
index 00000000..91ff4b7c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpRecover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-recover.html">v0.2.0</a><a href="mp-recover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpRecover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpRecover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr><span><span>Recover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-recover.html">mpRecover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable continuation of interrupted multiprocessing run.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-recover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html
new file mode 100644
index 00000000..f24a3d6d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mpSelf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/mp-self.html">v0.2.0</a><a href="mp-self.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/mpSelf/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">mpSelf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mp</span><wbr><span><span>Self</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mp-self.html">mpSelf</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--mp-self</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html
new file mode 100644
index 00000000..845c19bf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>multiprocessing</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/multiprocessing.html">v0.2.0</a><a href="multiprocessing.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/multiprocessing/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">multiprocessing</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>multiprocessing</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="multiprocessing.html">multiprocessing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">enable distributed-memory parallel processing</p><p class="paragraph">Flag = <code class="lang-kotlin">--multiprocessing</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html
new file mode 100644
index 00000000..f4b67f02
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>penalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/penalty.html">v0.2.0</a><a href="penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/penalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">penalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="penalty.html">penalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">BlastN mismatch penalty</p><p class="paragraph">Flag = <code class="lang-kotlin">--penalty</code> Default = <code class="lang-kotlin">-3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html
new file mode 100644
index 00000000..886ecc66
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryOrSubjectCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-or-subject-cover.html">v0.2.0</a><a href="query-or-subject-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/queryOrSubjectCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">queryOrSubjectCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span>Or</span><wbr><span>Subject</span><wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-or-subject-cover.html">queryOrSubjectCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-or-subject-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html
new file mode 100644
index 00000000..8e040752
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryParallelLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/query-parallel-limit.html">v0.2.0</a><a href="query-parallel-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/queryParallelLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">queryParallelLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span>Parallel</span><wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-parallel-limit.html">queryParallelLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-parallel-limit</code> Default = <code class="lang-kotlin">3000000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html
new file mode 100644
index 00000000..0cab6c01
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rangeCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/range-cover.html">v0.2.0</a><a href="range-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/rangeCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">rangeCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>range</span><wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-cover.html">rangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Percentage of query range to be covered for range culling (default=50%).</p><p class="paragraph">Flag = <code class="lang-kotlin">--range-cover</code> Default = <code class="lang-kotlin">50.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html
new file mode 100644
index 00000000..0606b885
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>repetitionCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/repetition-cutoff.html">v0.2.0</a><a href="repetition-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/repetitionCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">repetitionCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>repetition</span><wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="repetition-cutoff.html">repetitionCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Filter out top FLOAT fraction of repetitive minimizers.</p><p class="paragraph">Flag = <code class="lang-kotlin">--repetition-cutoff</code> Default = <code class="lang-kotlin">0.0002</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html
new file mode 100644
index 00000000..090fe21b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reward</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/reward.html">v0.2.0</a><a href="reward.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/reward/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">reward</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>reward</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reward.html">reward</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">BlastN match reward</p><p class="paragraph">Flag = <code class="lang-kotlin">--reward</code> Default = <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html
new file mode 100644
index 00000000..f3a8d485
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rocFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/roc-file.html">v0.2.0</a><a href="roc-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/rocFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">rocFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>roc</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="roc-file.html">rocFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--roc-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html
new file mode 100644
index 00000000..329f2c4e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>samQueryLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/sam-query-len.html">v0.2.0</a><a href="sam-query-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/samQueryLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">samQueryLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sam</span><wbr><span>Query</span><wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sam-query-len.html">samQueryLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Add the query length to the SAM format (tag ZQ).</p><p class="paragraph">Flag = <code class="lang-kotlin">--sam-query-len</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html
new file mode 100644
index 00000000..51de375f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedCut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/seed-cut.html">v0.2.0</a><a href="seed-cut.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/seedCut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">seedCut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr><span><span>Cut</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-cut.html">seedCut</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Cutoff for seed complexity.</p><p class="paragraph">Flag = <code class="lang-kotlin">--seed-cut</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html
new file mode 100644
index 00000000..d27dfb31
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapeMask</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/shape-mask.html">v0.2.0</a><a href="shape-mask.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/shapeMask/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">shapeMask</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>shape</span><wbr><span><span>Mask</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shape-mask.html">shapeMask</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Seed shapes</p><p class="paragraph">Flag = <code class="lang-kotlin">--shape-mask</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html
new file mode 100644
index 00000000..bc9f7993
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>stopMatchScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/stop-match-score.html">v0.2.0</a><a href="stop-match-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/stopMatchScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">stopMatchScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>stop</span><wbr><span>Match</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="stop-match-score.html">stopMatchScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Set the match score of stop codons against each other.</p><p class="paragraph">Flag = <code class="lang-kotlin">--stop-match-score</code> Default = <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html
new file mode 100644
index 00000000..6b07a81b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetIndexed</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/target-indexed.html">v0.2.0</a><a href="target-indexed.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/targetIndexed/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">targetIndexed</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr><span><span>Indexed</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-indexed.html">targetIndexed</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable target-indexed mode.</p><p class="paragraph">Flag = <code class="lang-kotlin">--target-indexed</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html
new file mode 100644
index 00000000..54fd73a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonK</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/taxon-k.html">v0.2.0</a><a href="taxon-k.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/taxonK/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">taxonK</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span><span>K</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-k.html">taxonK</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Maximum number of targets to report per species.</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxon-k</code> Default = <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html
new file mode 100644
index 00000000..95557ec0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedTargets</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/unaligned-targets.html">v0.2.0</a><a href="unaligned-targets.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/unalignedTargets/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedTargets</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr><span><span>Targets</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-targets.html">unalignedTargets</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: What is this?</p><p class="paragraph">Flag = <code class="lang-kotlin">--unaligned-targets</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html
new file mode 100644
index 00000000..2119c508
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>xDrop</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/x-drop.html">v0.2.0</a><a href="x-drop.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/xDrop/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">xDrop</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>x</span><wbr><span><span>Drop</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="x-drop.html">xDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">xDrop for ungapped alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--xdrop</code> | <code class="lang-kotlin">-x</code> Default = <code class="lang-kotlin">12.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html
new file mode 100644
index 00000000..380a7d41
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>xmlBlOrdFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
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+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/xml-bl-ord-format.html">v0.2.0</a><a href="xml-bl-ord-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/xmlBlOrdFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">xmlBlOrdFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>xml</span><wbr><span>Bl</span><wbr><span>Ord</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="xml-bl-ord-format.html">xmlBlOrdFormat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use gnl|BL_ORD_ID| style format in XML output.</p><p class="paragraph">Flag = <code class="lang-kotlin">--xml-blord-format</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html
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--- /dev/null
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@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>zDrop</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-advanced-query-option-container/z-drop.html">v0.2.0</a><a href="z-drop.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AdvancedQueryOptionContainer/zDrop/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AdvancedQueryOptionContainer</a><span class="delimiter">/</span><span class="current">zDrop</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>z</span><wbr><span><span>Drop</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="z-drop.html">zDrop</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">zDrop for gapped dna alignment</p><p class="paragraph">Flag = <code class="lang-kotlin">--zdrop</code> | <code class="lang-kotlin">-z</code> Default = <code class="lang-kotlin">40</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html
new file mode 100644
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@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>approxIdentity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/approx-identity.html">v0.2.0</a><a href="approx-identity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/approxIdentity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">approxIdentity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>approx</span><wbr><span><span>Identity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p><p class="paragraph">Flag = <code class="lang-kotlin">--approx-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html
new file mode 100644
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--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>expectValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/expect-value.html">v0.2.0</a><a href="expect-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/expectValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">expectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>expect</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Maximum e-value to report alignments.</p><p class="paragraph">Flag = <code class="lang-kotlin">--evalue</code> | <code class="lang-kotlin">-e</code> Default = <code class="lang-kotlin">0.001</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html
new file mode 100644
index 00000000..a6a319f5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extensionMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/extension-mode.html">v0.2.0</a><a href="extension-mode.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/extensionMode/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">extensionMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>extension</span><wbr><span><span>Mode</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../-extension-mode/index.html">ExtensionMode</a></div><p class="paragraph">Extension mode.</p><p class="paragraph">Flag = <code class="lang-kotlin">--ext</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html
new file mode 100644
index 00000000..5871bf71
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html
@@ -0,0 +1,153 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerClusteringOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerClusteringOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr><span>Clustering</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerClusteringOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="445056791%2FProperties%2F769193423" anchor-label="approxIdentity" id="445056791%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="approx-identity.html"><span>approx</span><wbr><span><span>Identity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="445056791%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-identity.html">approxIdentity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum approximate identity % to report an alignment/to cluster sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="686478355%2FProperties%2F769193423" anchor-label="expectValue" id="686478355%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="expect-value.html"><span>expect</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="686478355%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="expect-value.html">expectValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum e-value to report alignments.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-131949079%2FProperties%2F769193423" anchor-label="extensionMode" id="-131949079%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="extension-mode.html"><span>extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-131949079%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="extension-mode.html">extensionMode</a><span class="token operator">: </span><a href="../-extension-mode/index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Extension mode.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1886249304%2FProperties%2F769193423" anchor-label="motifMasking" id="-1886249304%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="motif-masking.html"><span>motif</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1886249304%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Softmask abundant motifs (0/1)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html
new file mode 100644
index 00000000..1879371b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>motifMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-option-container/motif-masking.html">v0.2.0</a><a href="motif-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringOptionContainer/motifMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringOptionContainer</a><span class="delimiter">/</span><span class="current">motifMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>motif</span><wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-masking.html">motifMasking</a><span class="token operator">: </span><a href="../-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div><p class="paragraph">Softmask abundant motifs (0/1)</p><p class="paragraph">Flag = <code class="lang-kotlin">--motif-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html
new file mode 100644
index 00000000..763146b2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>compBasedStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/comp-based-stats.html">v0.2.0</a><a href="comp-based-stats.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/compBasedStats/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">compBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../-composition-based-stats/index.html">CompositionBasedStats</a></div><p class="paragraph">Composition based statistics mode (0-4)</p><p class="paragraph">Flag = <code class="lang-kotlin">--comp-based-stats</code> Default = CompBasedStats.Hauser</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html
new file mode 100644
index 00000000..048a6038
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html
@@ -0,0 +1,168 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerClusteringRealignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerClusteringRealignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr><span>Clustering</span><wbr><span>Realign</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerClusteringRealignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-653723144%2FProperties%2F769193423" anchor-label="compBasedStats" id="-653723144%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="comp-based-stats.html"><span>comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653723144%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="comp-based-stats.html">compBasedStats</a><span class="token operator">: </span><a href="../-composition-based-stats/index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Composition based statistics mode (0-4)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1441903825%2FProperties%2F769193423" anchor-label="masking" id="1441903825%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="masking.html"><span><span>masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1441903825%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="masking.html">masking</a><span class="token operator">: </span><a href="../-masking-mode/index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Masking algorithm.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1993141571%2FProperties%2F769193423" anchor-label="mmseqsCompat" id="-1993141571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mmseqs-compat.html"><span>mmseqs</span><wbr><span><span>Compat</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1993141571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1218326181%2FProperties%2F769193423" anchor-label="noBlockSizeLimit" id="1218326181%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-block-size-limit.html"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1218326181%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">TODO: document this</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-783380453%2FProperties%2F769193423" anchor-label="softMasking" id="-783380453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="soft-masking.html"><span>soft</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-783380453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Soft masking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html
new file mode 100644
index 00000000..e3e03658
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>masking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/masking.html">v0.2.0</a><a href="masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/masking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">masking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="masking.html">masking</a><span class="token operator">: </span><a href="../-masking-mode/index.html">MaskingMode</a></div><p class="paragraph">Masking algorithm.</p><p class="paragraph">Flag = <code class="lang-kotlin">--masking</code> Default = <a href="../-masking-mode/-tantan/index.html">MaskingMode.Tantan</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html
new file mode 100644
index 00000000..89fe5b6c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mmseqsCompat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/mmseqs-compat.html">v0.2.0</a><a href="mmseqs-compat.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/mmseqsCompat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">mmseqsCompat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mmseqs</span><wbr><span><span>Compat</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mmseqs-compat.html">mmseqsCompat</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: document this</p><p class="paragraph">Key = <code class="lang-kotlin">--mmseqs-compat</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html
new file mode 100644
index 00000000..8ee1ec32
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noBlockSizeLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/no-block-size-limit.html">v0.2.0</a><a href="no-block-size-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/noBlockSizeLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">noBlockSizeLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Block</span><wbr><span>Size</span><wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-block-size-limit.html">noBlockSizeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">TODO: document this</p><p class="paragraph">Key = <code class="lang-kotlin">--no-block-size-limit</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html
new file mode 100644
index 00000000..2cb0e973
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>softMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-clustering-realign-option-container/soft-masking.html">v0.2.0</a><a href="soft-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerClusteringRealignOptionContainer/softMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerClusteringRealignOptionContainer</a><span class="delimiter">/</span><span class="current">softMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>soft</span><wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="soft-masking.html">softMasking</a><span class="token operator">: </span><a href="../-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div><p class="paragraph">Soft masking.</p><p class="paragraph">Default value is subcommand dependent.</p><p class="paragraph">Flag = <code class="lang-kotlin">--soft-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html
new file mode 100644
index 00000000..e4189a67
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignedFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file-format.html">v0.2.0</a><a href="aligned-file-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/alignedFileFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">alignedFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><p class="paragraph">Format of aligned query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--alfmt</code> Default = <a href="../-query-file-format/-f-a-s-t-a/index.html">QueryFileFormat.FASTA</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html
new file mode 100644
index 00000000..8fdb0e91
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alignedFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/aligned-file.html">v0.2.0</a><a href="aligned-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/alignedFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">alignedFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aligned</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File or aligned queries</p><p class="paragraph">Flag = <code class="lang-kotlin">--al</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html
new file mode 100644
index 00000000..d019ac49
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blockSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/block-size.html">v0.2.0</a><a href="block-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/blockSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">blockSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>block</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Sequence block size in billions of letters.</p><p class="paragraph">Flag = <code class="lang-kotlin">--block-size</code> | <code class="lang-kotlin">-b</code> Default = <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html
new file mode 100644
index 00000000..aba3be5d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>compress</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/compress.html">v0.2.0</a><a href="compress.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/compress/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">compress</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>compress</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="compress.html">compress</a><span class="token operator">: </span><a href="../-compression/index.html">Compression</a></div><p class="paragraph">Compression for output files.</p><p class="paragraph">Flag = <code class="lang-kotlin">--compress</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html
new file mode 100644
index 00000000..d4fa33f9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>customMatrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/custom-matrix.html">v0.2.0</a><a href="custom-matrix.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/customMatrix/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">customMatrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>custom</span><wbr><span><span>Matrix</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File containing custom scoring matrix.</p><p class="paragraph">Flag = <code class="lang-kotlin">--custom-matrix</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html
new file mode 100644
index 00000000..b48f203c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>frameShiftPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/frame-shift-penalty.html">v0.2.0</a><a href="frame-shift-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/frameShiftPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">frameShiftPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>frame</span><wbr><span>Shift</span><wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Frame shift penalty (default=disabled)</p><p class="paragraph">Flag = <code class="lang-kotlin">--frameshift</code> | <code class="lang-kotlin">-F</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html
new file mode 100644
index 00000000..e27b1b51
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gapExtendPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-extend-penalty.html">v0.2.0</a><a href="gap-extend-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/gapExtendPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">gapExtendPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gap</span><wbr><span>Extend</span><wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Gap extension penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapextend</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html
new file mode 100644
index 00000000..60d96505
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gapOpenPenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/gap-open-penalty.html">v0.2.0</a><a href="gap-open-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/gapOpenPenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">gapOpenPenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gap</span><wbr><span>Open</span><wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Gap open penalty.</p><p class="paragraph">Flag = <code class="lang-kotlin">--gapopen</code> Default = <code class="lang-kotlin">-1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html
new file mode 100644
index 00000000..be08ca4b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>globalRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/global-ranking.html">v0.2.0</a><a href="global-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/globalRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">globalRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>global</span><wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Number of targets for global ranking.</p><p class="paragraph">Type = <code class="lang-kotlin">--global-ranking</code> | <code class="lang-kotlin">-g</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html
new file mode 100644
index 00000000..7410409d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeAllSubjectIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-all-subject-i-ds.html">v0.2.0</a><a href="include-all-subject-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/includeAllSubjectIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">includeAllSubjectIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr><span>All</span><wbr><span>Subject</span><wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include all subject ids in DAA file</p><p class="paragraph">Flag = <code class="lang-kotlin">--sallseqid</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html
new file mode 100644
index 00000000..fa04b517
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeFullSubjectTitles</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/include-full-subject-titles.html">v0.2.0</a><a href="include-full-subject-titles.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/includeFullSubjectTitles/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">includeFullSubjectTitles</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr><span>Full</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include full subject titles in DAA file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--salltitles</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html
new file mode 100644
index 00000000..5c47e300
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>indexChunks</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index-chunks.html">v0.2.0</a><a href="index-chunks.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/indexChunks/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">indexChunks</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>index</span><wbr><span><span>Chunks</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of chunks for index processing.</p><p class="paragraph">Flag = <code class="lang-kotlin">--index-chunks</code> | <code class="lang-kotlin">-c</code> Default = <code class="lang-kotlin">4</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html
new file mode 100644
index 00000000..c429977c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html
@@ -0,0 +1,603 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="664240325%2FProperties%2F769193423" anchor-label="alignedFile" id="664240325%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aligned-file.html"><span>aligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="664240325%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file.html">alignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File or aligned queries</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080788850%2FProperties%2F769193423" anchor-label="alignedFileFormat" id="-2080788850%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aligned-file-format.html"><span>aligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080788850%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aligned-file-format.html">alignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of aligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="329160279%2FProperties%2F769193423" anchor-label="blockSize" id="329160279%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="block-size.html"><span>block</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="329160279%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="block-size.html">blockSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Sequence block size in billions of letters.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="316890259%2FProperties%2F769193423" anchor-label="compress" id="316890259%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="compress.html"><span><span>compress</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="316890259%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="compress.html">compress</a><span class="token operator">: </span><a href="../-compression/index.html">Compression</a></div><div class="brief "><p class="paragraph">Compression for output files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-808547485%2FProperties%2F769193423" anchor-label="customMatrix" id="-808547485%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="custom-matrix.html"><span>custom</span><wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-808547485%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="custom-matrix.html">customMatrix</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File containing custom scoring matrix.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="851856273%2FProperties%2F769193423" anchor-label="frameShiftPenalty" id="851856273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="frame-shift-penalty.html"><span>frame</span><wbr><span>Shift</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="851856273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="frame-shift-penalty.html">frameShiftPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Frame shift penalty (default=disabled)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928311036%2FProperties%2F769193423" anchor-label="gapExtendPenalty" id="928311036%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gap-extend-penalty.html"><span>gap</span><wbr><span>Extend</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928311036%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-extend-penalty.html">gapExtendPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap extension penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1651495340%2FProperties%2F769193423" anchor-label="gapOpenPenalty" id="1651495340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gap-open-penalty.html"><span>gap</span><wbr><span>Open</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1651495340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gap-open-penalty.html">gapOpenPenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Gap open penalty.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1437686510%2FProperties%2F769193423" anchor-label="globalRanking" id="-1437686510%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="global-ranking.html"><span>global</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1437686510%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="global-ranking.html">globalRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Number of targets for global ranking.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1538832752%2FProperties%2F769193423" anchor-label="includeAllSubjectIDs" id="-1538832752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-all-subject-i-ds.html"><span>include</span><wbr><span>All</span><wbr><span>Subject</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1538832752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-all-subject-i-ds.html">includeAllSubjectIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include all subject ids in DAA file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1955096677%2FProperties%2F769193423" anchor-label="includeFullSubjectTitles" id="1955096677%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-full-subject-titles.html"><span>include</span><wbr><span>Full</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1955096677%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-full-subject-titles.html">includeFullSubjectTitles</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include full subject titles in DAA file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="569417389%2FProperties%2F769193423" anchor-label="indexChunks" id="569417389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="index-chunks.html"><span>index</span><wbr><span><span>Chunks</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="569417389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="index-chunks.html">indexChunks</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of chunks for index processing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1814583413%2FProperties%2F769193423" anchor-label="iterate" id="-1814583413%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="iterate.html"><span><span>iterate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1814583413%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Iterated search with increasing sensitivity.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="955941732%2FProperties%2F769193423" anchor-label="longReads" id="955941732%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="long-reads.html"><span>long</span><wbr><span><span>Reads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="955941732%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-228514028%2FProperties%2F769193423" anchor-label="matrix" id="-228514028%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="matrix.html"><span><span>matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-228514028%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="matrix.html">matrix</a><span class="token operator">: </span><a href="../-score-matrix/index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Score matrix for protein alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1276433203%2FProperties%2F769193423" anchor-label="maxHSPs" id="1276433203%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-h-s-ps.html"><span>max</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1276433203%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-258901793%2FProperties%2F769193423" anchor-label="minimumIdentityPercentage" id="-258901793%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-identity-percentage.html"><span>minimum</span><wbr><span>Identity</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-258901793%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum identity percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1677057618%2FProperties%2F769193423" anchor-label="minimumQueryCoverPercentage" id="-1677057618%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-query-cover-percentage.html"><span>minimum</span><wbr><span>Query</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1677057618%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum query cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1924279186%2FProperties%2F769193423" anchor-label="minimumSubjectCoverPercentage" id="1924279186%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimum-subject-cover-percentage.html"><span>minimum</span><wbr><span>Subject</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1924279186%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum subject cover percentage to report an alignment.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1993397845%2FProperties%2F769193423" anchor-label="minScore" id="1993397845%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-score.html"><span>min</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1993397845%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1070914872%2FProperties%2F769193423" anchor-label="noSelfHits" id="-1070914872%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-self-hits.html"><span>no</span><wbr><span>Self</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1070914872%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Suppress reporting of identical self hits.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="870131064%2FProperties%2F769193423" anchor-label="parallelTmpDir" id="870131064%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="parallel-tmp-dir.html"><span>parallel</span><wbr><span>Tmp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="870131064%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files used by multiprocessing.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2090274045%2FProperties%2F769193423" anchor-label="query" id="2090274045%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query.html"><span><span>query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2090274045%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Input query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2118721504%2FProperties%2F769193423" anchor-label="queryGenCode" id="2118721504%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-gen-code.html"><span>query</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2118721504%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../-translator-gen-code/index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Genetic code to use to translate query.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="194778082%2FProperties%2F769193423" anchor-label="rangeCulling" id="194778082%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="range-culling.html"><span>range</span><wbr><span><span>Culling</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="194778082%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restrict hit culling to overlapping query ranges.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="120396333%2FProperties%2F769193423" anchor-label="seqIdList" id="120396333%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seq-id-list.html"><span>seq</span><wbr><span>Id</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="120396333%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filter the database by list of accessions.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1028826875%2FProperties%2F769193423" anchor-label="skipMissingSeqIDs" id="-1028826875%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="skip-missing-seq-i-ds.html"><span>skip</span><wbr><span>Missing</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1028826875%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Ignore accessions missing in the database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="633349231%2FProperties%2F769193423" anchor-label="strand" id="633349231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="strand.html"><span><span>strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="633349231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strand.html">strand</a><span class="token operator">: </span><a href="../-query-strand/index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Query strands to search.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-63460661%2FProperties%2F769193423" anchor-label="swipe" id="-63460661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe.html"><span><span>swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-63460661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Exhaustive alignment against all database sequences.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-554774523%2FProperties%2F769193423" anchor-label="taxonExclude" id="-554774523%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-exclude.html"><span>taxon</span><wbr><span><span>Exclude</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-554774523%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Exclude list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="663493437%2FProperties%2F769193423" anchor-label="taxonList" id="663493437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="taxon-list.html"><span>taxon</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="663493437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Restrict search to list of taxon ids.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-851585615%2FProperties%2F769193423" anchor-label="unal" id="-851585615%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unal.html"><span><span>unal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-851585615%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Report unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="70735070%2FProperties%2F769193423" anchor-label="unalignedFile" id="70735070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-file.html"><span>unaligned</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="70735070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">File for unaligned queries.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="15092711%2FProperties%2F769193423" anchor-label="unalignedFileFormat" id="15092711%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="unaligned-file-format.html"><span>unaligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="15092711%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Format of unaligned query file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html
new file mode 100644
index 00000000..fc013a77
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>iterate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/iterate.html">v0.2.0</a><a href="iterate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/iterate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">iterate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>iterate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="iterate.html">iterate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="../-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Iterated search with increasing sensitivity.</p><p class="paragraph">Flag = <code class="lang-kotlin">--iterate</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html
new file mode 100644
index 00000000..6254ae2f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>longReads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/long-reads.html">v0.2.0</a><a href="long-reads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/longReads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">longReads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>long</span><wbr><span><span>Reads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="long-reads.html">longReads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Short for <code class="lang-kotlin">--range-culling --top 10 -F 15</code>.</p><p class="paragraph">TODO: conflict detection!</p><p class="paragraph">Flag = <code class="lang-kotlin">--long-reads</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html
new file mode 100644
index 00000000..ae15bcce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>matrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/matrix.html">v0.2.0</a><a href="matrix.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/matrix/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">matrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>matrix</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="matrix.html">matrix</a><span class="token operator">: </span><a href="../-score-matrix/index.html">ScoreMatrix</a></div><p class="paragraph">Score matrix for protein alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--matrix</code> Default = <a href="../-score-matrix/-b-l-o-s-u-m62/index.html">ScoreMatrix.BLOSUM62</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html
new file mode 100644
index 00000000..8d3e266e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxHSPs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/max-h-s-ps.html">v0.2.0</a><a href="max-h-s-ps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/maxHSPs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">maxHSPs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span><span>HSPs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-h-s-ps.html">maxHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Maximum number of HSPs per target sequence to report for each query.</p><p class="paragraph">Flag = <code class="lang-kotlin">--max-hsps</code> Default = <code class="lang-kotlin">1u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html
new file mode 100644
index 00000000..29b09638
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/min-score.html">v0.2.0</a><a href="min-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-score.html">minScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum bit score to report alignments (overrides e-value setting).</p><p class="paragraph">Flag = <code class="lang-kotlin">--min-score</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html
new file mode 100644
index 00000000..b560aa9b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumIdentityPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-identity-percentage.html">v0.2.0</a><a href="minimum-identity-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumIdentityPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumIdentityPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr><span>Identity</span><wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-identity-percentage.html">minimumIdentityPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum identity percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html
new file mode 100644
index 00000000..c36f45eb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumQueryCoverPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-query-cover-percentage.html">v0.2.0</a><a href="minimum-query-cover-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumQueryCoverPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumQueryCoverPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr><span>Query</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-query-cover-percentage.html">minimumQueryCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum query cover percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html
new file mode 100644
index 00000000..d921e073
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimumSubjectCoverPercentage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/minimum-subject-cover-percentage.html">v0.2.0</a><a href="minimum-subject-cover-percentage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/minimumSubjectCoverPercentage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">minimumSubjectCoverPercentage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimum</span><wbr><span>Subject</span><wbr><span>Cover</span><wbr><span><span>Percentage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimum-subject-cover-percentage.html">minimumSubjectCoverPercentage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum subject cover percentage to report an alignment.</p><p class="paragraph">Flag = <code class="lang-kotlin">--subject-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html
new file mode 100644
index 00000000..7afcdd74
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noSelfHits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/no-self-hits.html">v0.2.0</a><a href="no-self-hits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/noSelfHits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">noSelfHits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Self</span><wbr><span><span>Hits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-self-hits.html">noSelfHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Suppress reporting of identical self hits.</p><p class="paragraph">Flag = <code class="lang-kotlin">--no-self-hits</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html
new file mode 100644
index 00000000..ae3fb013
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>parallelTmpDir</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/parallel-tmp-dir.html">v0.2.0</a><a href="parallel-tmp-dir.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/parallelTmpDir/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">parallelTmpDir</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>parallel</span><wbr><span>Tmp</span><wbr><span><span>Dir</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="parallel-tmp-dir.html">parallelTmpDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Directory for temporary files used by multiprocessing.</p><p class="paragraph">Flag = <code class="lang-kotlin">--parallel-tmpdir</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html
new file mode 100644
index 00000000..8175ca41
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryGenCode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query-gen-code.html">v0.2.0</a><a href="query-gen-code.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/queryGenCode/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">queryGenCode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-gen-code.html">queryGenCode</a><span class="token operator">: </span><a href="../-translator-gen-code/index.html">TranslatorGenCode</a></div><p class="paragraph">Genetic code to use to translate query.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query-gencode</code> Default = <a href="../-translator-gen-code/-standard/index.html">TranslatorGenCode.Standard</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html
new file mode 100644
index 00000000..3643bc40
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>query</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/query.html">v0.2.0</a><a href="query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/query/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">query</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query.html">query</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a><span class="token operator">&gt;</span></div><p class="paragraph">Input query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--query</code> | <code class="lang-kotlin">-q</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html
new file mode 100644
index 00000000..d1184d9d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rangeCulling</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/range-culling.html">v0.2.0</a><a href="range-culling.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/rangeCulling/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">rangeCulling</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>range</span><wbr><span><span>Culling</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="range-culling.html">rangeCulling</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Restrict hit culling to overlapping query ranges.</p><p class="paragraph">Flag = <code class="lang-kotlin">--range-culling</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html
new file mode 100644
index 00000000..f71f6aa7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seqIdList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/seq-id-list.html">v0.2.0</a><a href="seq-id-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/seqIdList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">seqIdList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seq</span><wbr><span>Id</span><wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seq-id-list.html">seqIdList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Filter the database by list of accessions.</p><p class="paragraph">Flag = <code class="lang-kotlin">--seqidlist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html
new file mode 100644
index 00000000..1b8f89f9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>skipMissingSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/skip-missing-seq-i-ds.html">v0.2.0</a><a href="skip-missing-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/skipMissingSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">skipMissingSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>skip</span><wbr><span>Missing</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="skip-missing-seq-i-ds.html">skipMissingSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Ignore accessions missing in the database.</p><p class="paragraph">Flag = <code class="lang-kotlin">--skip-missing-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html
new file mode 100644
index 00000000..6c8724a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>strand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/strand.html">v0.2.0</a><a href="strand.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/strand/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">strand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>strand</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strand.html">strand</a><span class="token operator">: </span><a href="../-query-strand/index.html">QueryStrand</a></div><p class="paragraph">Query strands to search.</p><p class="paragraph">Flag = <code class="lang-kotlin">--strand</code> Default = <a href="../-query-strand/-both/index.html">QueryStrand.Both</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html
new file mode 100644
index 00000000..183c9388
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipe</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/swipe.html">v0.2.0</a><a href="swipe.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/swipe/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">swipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>swipe</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe.html">swipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Exhaustive alignment against all database sequences.</p><p class="paragraph">Flag = <code class="lang-kotlin">--swipe</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html
new file mode 100644
index 00000000..7da10fd0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonExclude</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-exclude.html">v0.2.0</a><a href="taxon-exclude.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/taxonExclude/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">taxonExclude</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span><span>Exclude</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-exclude.html">taxonExclude</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Exclude list of taxon ids.</p><p class="paragraph">TODO: comma separated list on serialization!</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxon-exclude</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html
new file mode 100644
index 00000000..5c4208dc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>taxonList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/taxon-list.html">v0.2.0</a><a href="taxon-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/taxonList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">taxonList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>taxon</span><wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="taxon-list.html">taxonList</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Restrict search to list of taxon ids.</p><p class="paragraph">Flag = <code class="lang-kotlin">--taxonlist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html
new file mode 100644
index 00000000..20f20777
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unal</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unal.html">v0.2.0</a><a href="unal.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unal/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>unal</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unal.html">unal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Report unaligned queries.</p><p class="paragraph">Flag = <code class="lang-kotlin">--unal</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html
new file mode 100644
index 00000000..4f38d531
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file-format.html">v0.2.0</a><a href="unaligned-file-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unalignedFileFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr><span>File</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file-format.html">unalignedFileFormat</a><span class="token operator">: </span><a href="../-query-file-format/index.html">QueryFileFormat</a></div><p class="paragraph">Format of unaligned query file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--unfmt</code> Default = <a href="../-query-file-format/-f-a-s-t-a/index.html">QueryFileFormat.FASTA</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html
new file mode 100644
index 00000000..4cdb71f5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>unalignedFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-general-option-container/unaligned-file.html">v0.2.0</a><a href="unaligned-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerGeneralOptionContainer/unalignedFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">unalignedFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>unaligned</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="unaligned-file.html">unalignedFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">File for unaligned queries.</p><p class="paragraph">Flag = <code class="lang-kotlin">--un</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html
new file mode 100644
index 00000000..d2d8b5e7
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+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fast</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/fast.html">v0.2.0</a><a href="fast.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/fast/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">fast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>fast</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html
new file mode 100644
index 00000000..5bea9c6a
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+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>faster</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/faster.html">v0.2.0</a><a href="faster.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/faster/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">faster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>faster</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html
new file mode 100644
index 00000000..f8d93b4c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html
@@ -0,0 +1,243 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerSensitivityOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerSensitivityOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr><span>Sensitivity</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerSensitivityOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-161954046%2FProperties%2F769193423" anchor-label="fast" id="-161954046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fast.html"><span><span>fast</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161954046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="fast.html">fast</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1247783349%2FProperties%2F769193423" anchor-label="faster" id="1247783349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="faster.html"><span><span>faster</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1247783349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="faster.html">faster</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-184236688%2FProperties%2F769193423" anchor-label="midSensitive" id="-184236688%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mid-sensitive.html"><span>mid</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-184236688%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1110743781%2FProperties%2F769193423" anchor-label="moreSensitive" id="-1110743781%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="more-sensitive.html"><span>more</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1110743781%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-464381338%2FProperties%2F769193423" anchor-label="sensitive" id="-464381338%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sensitive.html"><span><span>sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-464381338%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-884534595%2FProperties%2F769193423" anchor-label="sensitivity" id="-884534595%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sensitivity.html"><span><span>sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-884534595%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../-sensitivity/index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243501844%2FProperties%2F769193423" anchor-label="shapes" id="-1243501844%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shapes.html"><span><span>shapes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243501844%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1523452436%2FProperties%2F769193423" anchor-label="shapes30x10" id="1523452436%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="shapes30x10.html"><span><span>shapes30x10</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1523452436%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-744023660%2FProperties%2F769193423" anchor-label="ultraSensitive" id="-744023660%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ultra-sensitive.html"><span>ultra</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-744023660%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1846779580%2FProperties%2F769193423" anchor-label="verySensitive" id="1846779580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="very-sensitive.html"><span>very</span><wbr><span><span>Sensitive</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1846779580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html
new file mode 100644
index 00000000..4dc69baa
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>midSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/mid-sensitive.html">v0.2.0</a><a href="mid-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/midSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">midSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mid</span><wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="mid-sensitive.html">midSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html
new file mode 100644
index 00000000..2bf425ce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>moreSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/more-sensitive.html">v0.2.0</a><a href="more-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/moreSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">moreSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>more</span><wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="more-sensitive.html">moreSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html
new file mode 100644
index 00000000..15666d18
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitive.html">v0.2.0</a><a href="sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/sensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">sensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="sensitive.html">sensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html
new file mode 100644
index 00000000..dfd3867f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sensitivity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/sensitivity.html">v0.2.0</a><a href="sensitivity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/sensitivity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">sensitivity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>sensitivity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sensitivity.html">sensitivity</a><span class="token operator">: </span><a href="../-sensitivity/index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html
new file mode 100644
index 00000000..dcbdd46e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes.html">v0.2.0</a><a href="shapes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/shapes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">shapes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>shapes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="shapes.html">shapes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html
new file mode 100644
index 00000000..6ee53e0a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shapes30x10</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/shapes30x10.html">v0.2.0</a><a href="shapes30x10.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/shapes30x10/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">shapes30x10</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>shapes30x10</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="shapes30x10.html">shapes30x10</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html
new file mode 100644
index 00000000..56b7dd2f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ultraSensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/ultra-sensitive.html">v0.2.0</a><a href="ultra-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/ultraSensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">ultraSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ultra</span><wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="ultra-sensitive.html">ultraSensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html
new file mode 100644
index 00000000..32b95f4f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>verySensitive</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-sensitivity-option-container/very-sensitive.html">v0.2.0</a><a href="very-sensitive.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerSensitivityOptionContainer/verySensitive/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerSensitivityOptionContainer</a><span class="delimiter">/</span><span class="current">verySensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>very</span><wbr><span><span>Sensitive</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">var </span><a href="very-sensitive.html">verySensitive</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html
new file mode 100644
index 00000000..b073f8a4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlignerViewOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">AlignerViewOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Aligner</span><wbr><span>View</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">AlignerViewOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="990256671%2FProperties%2F769193423" anchor-label="maxTargetSeqs" id="990256671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-target-seqs.html"><span>max</span><wbr><span>Target</span><wbr><span><span>Seqs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="990256671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Maximum number of target sequences to report alignments for.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164792755%2FProperties%2F769193423" anchor-label="top" id="164792755%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="top.html"><span><span>top</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164792755%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Report alignments within this percentage range of top alignment score.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html
new file mode 100644
index 00000000..4ea855af
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxTargetSeqs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/max-target-seqs.html">v0.2.0</a><a href="max-target-seqs.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer/maxTargetSeqs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerViewOptionContainer</a><span class="delimiter">/</span><span class="current">maxTargetSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span>Target</span><wbr><span><span>Seqs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-target-seqs.html">maxTargetSeqs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Maximum number of target sequences to report alignments for.</p><p class="paragraph">Flag = <code class="lang-kotlin">--max-target-seqs</code> | <code class="lang-kotlin">-k</code> Default = <code class="lang-kotlin">25</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html
new file mode 100644
index 00000000..4819d63a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>top</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-aligner-view-option-container/top.html">v0.2.0</a><a href="top.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/AlignerViewOptionContainer/top/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">AlignerViewOptionContainer</a><span class="delimiter">/</span><span class="current">top</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>top</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="top.html">top</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Report alignments within this percentage range of top alignment score.</p><p class="paragraph">Overrides: <code class="lang-kotlin">--max-target-seqs</code></p><p class="paragraph">Flag = <code class="lang-kotlin">--top</code> Default = <code class="lang-kotlin">100.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html
new file mode 100644
index 00000000..eed429e3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeqIDLinear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d-linear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.BlastSeqIDLinear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">BlastSeqIDLinear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Seq</span><wbr><span><span>IDLinear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeqIDLinear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html
new file mode 100644
index 00000000..644c564b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeqID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-blast-seq-i-d/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.BlastSeqID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">BlastSeqID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span>Seq</span><wbr><span><span>ID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeqID</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html
new file mode 100644
index 00000000..5ae3233c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html
new file mode 100644
index 00000000..e908d593
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html
new file mode 100644
index 00000000..6b9bd24e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1601777815%2FFunctions%2F769193423" anchor-label="fromJson" id="1601777815%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1601777815%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1779865515%2FFunctions%2F769193423" anchor-label="fromString" id="1779865515%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1779865515%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">BenchmarkType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html
new file mode 100644
index 00000000..10d82851
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IPS4O</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-i-p-s4-o/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.IPS4O///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">IPS4O</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>IPS4O</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">IPS4O</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html
new file mode 100644
index 00000000..14ce282b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LoadRaw</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-raw/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.LoadRaw///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">LoadRaw</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Load</span><wbr><span><span>Raw</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LoadRaw</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html
new file mode 100644
index 00000000..13968cf1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LoadSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-load-seqs/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.LoadSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">LoadSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Load</span><wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LoadSeqs</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html
new file mode 100644
index 00000000..dd8c5512
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MMapMt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map-mt/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.MMapMt///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">MMapMt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>MMap</span><wbr><span><span>Mt</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MMapMt</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html
new file mode 100644
index 00000000..ab6cb311
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MMap</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-m-map/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.MMap///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">MMap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>MMap</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MMap</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html
new file mode 100644
index 00000000..59200b77
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SeedHit</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-seed-hit/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.SeedHit///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">SeedHit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Seed</span><wbr><span><span>Hit</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">SeedHit</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html
new file mode 100644
index 00000000..b95c2170
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Swipe</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/-swipe/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType.Swipe///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">Swipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Swipe</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Swipe</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html
new file mode 100644
index 00000000..cdf70457
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html
new file mode 100644
index 00000000..cb42ac90
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html
new file mode 100644
index 00000000..804a4af5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html
@@ -0,0 +1,360 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BenchmarkType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">BenchmarkType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Benchmark</span><wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">BenchmarkType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-876246648%2FClasslikes%2F769193423" anchor-label="Swipe" id="-876246648%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-swipe/index.html">Swipe</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-876246648%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-swipe/index.html">Swipe</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="377977136%2FClasslikes%2F769193423" anchor-label="SeedHit" id="377977136%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seed-hit/index.html">SeedHit</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="377977136%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-seed-hit/index.html">SeedHit</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1631630740%2FClasslikes%2F769193423" anchor-label="LoadSeqs" id="1631630740%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-load-seqs/index.html">LoadSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1631630740%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-load-seqs/index.html">LoadSeqs</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="734238512%2FClasslikes%2F769193423" anchor-label="LoadRaw" id="734238512%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-load-raw/index.html">LoadRaw</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="734238512%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-load-raw/index.html">LoadRaw</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1175513719%2FClasslikes%2F769193423" anchor-label="MMap" id="-1175513719%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-m-map/index.html">MMap</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1175513719%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-m-map/index.html">MMap</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="545770448%2FClasslikes%2F769193423" anchor-label="MMapMt" id="545770448%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-m-map-mt/index.html">MMapMt</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="545770448%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-m-map-mt/index.html">MMapMt</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1652952388%2FClasslikes%2F769193423" anchor-label="BlastSeqID" id="-1652952388%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seq-i-d/index.html">BlastSeqID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1652952388%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seq-i-d/index.html">BlastSeqID</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1388368575%2FClasslikes%2F769193423" anchor-label="BlastSeqIDLinear" id="-1388368575%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seq-i-d-linear/index.html">BlastSeqIDLinear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1388368575%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seq-i-d-linear/index.html">BlastSeqIDLinear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2106423637%2FClasslikes%2F769193423" anchor-label="IPS4O" id="2106423637%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-i-p-s4-o/index.html">IPS4O</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2106423637%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-i-p-s4-o/index.html">IPS4O</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-403313365%2FClasslikes%2F769193423" anchor-label="Companion" id="-403313365%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-403313365%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-165240923%2FProperties%2F769193423" anchor-label="cliValue" id="-165240923%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-165240923%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1943029996%2FProperties%2F769193423" anchor-label="entries" id="-1943029996%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1943029996%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1868822070%2FFunctions%2F769193423" anchor-label="toString" id="-1868822070%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1868822070%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="644957960%2FFunctions%2F769193423" anchor-label="valueOf" id="644957960%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="644957960%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1801158124%2FFunctions%2F769193423" anchor-label="values" id="-1801158124%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1801158124%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html
new file mode 100644
index 00000000..fc4a3991
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html
new file mode 100644
index 00000000..55eb0c77
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">BenchmarkType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html
new file mode 100644
index 00000000..3b1ee341
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/BenchmarkType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">BenchmarkType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">BenchmarkType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html
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index 00000000..969c4104
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterSteps</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/cluster-steps.html">v0.2.0</a><a href="cluster-steps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/clusterSteps/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">clusterSteps</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span><span>Steps</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Clustering steps.</p><p class="paragraph">Flag = <code class="lang-kotlin">--cluster-steps</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html
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index 00000000..c22b815d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html
@@ -0,0 +1,153 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringGeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringGeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringGeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1861456324%2FProperties%2F769193423" anchor-label="clusterSteps" id="-1861456324%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-steps.html"><span>cluster</span><wbr><span><span>Steps</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1861456324%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-steps.html">clusterSteps</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Clustering steps.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="301299018%2FProperties%2F769193423" anchor-label="kmerRanking" id="301299018%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="kmer-ranking.html"><span>kmer</span><wbr><span><span>Ranking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="301299018%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="137737486%2FProperties%2F769193423" anchor-label="roundApproxID" id="137737486%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="round-approx-i-d.html"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="137737486%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1106208453%2FProperties%2F769193423" anchor-label="roundCoverage" id="-1106208453%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="round-coverage.html"><span>round</span><wbr><span><span>Coverage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1106208453%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html
new file mode 100644
index 00000000..32117731
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>kmerRanking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/kmer-ranking.html">v0.2.0</a><a href="kmer-ranking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/kmerRanking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">kmerRanking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>kmer</span><wbr><span><span>Ranking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="kmer-ranking.html">kmerRanking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Rank sequences based on kmer frequency in linear stage.</p><p class="paragraph">Flag = <code class="lang-kotlin">--kmer-ranking</code> Default = `` Type = <code class="lang-kotlin">bool</code> Config Var = <code class="lang-kotlin">kmer_ranking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html
new file mode 100644
index 00000000..31663f85
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>roundApproxID</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-approx-i-d.html">v0.2.0</a><a href="round-approx-i-d.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/roundApproxID/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">roundApproxID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>round</span><wbr><span>Approx</span><wbr><span><span>ID</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-approx-i-d.html">roundApproxID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Per-round approx-id cutoffs for cascaded clustering.</p><p class="paragraph">Flag = <code class="lang-kotlin">--round-approx-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html
new file mode 100644
index 00000000..0d54cbbe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>roundCoverage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-general-option-container/round-coverage.html">v0.2.0</a><a href="round-coverage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringGeneralOptionContainer/roundCoverage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringGeneralOptionContainer</a><span class="delimiter">/</span><span class="current">roundCoverage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>round</span><wbr><span><span>Coverage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="round-coverage.html">roundCoverage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.collections/-list/index.html">List</a><span class="token operator">&lt;</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">&gt;</span></div><p class="paragraph">Per-round coverage cutoffs for cascaded clustering.</p><p class="paragraph">Flag = <code class="lang-kotlin">--round-coverage</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html
new file mode 100644
index 00000000..201b9230
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clustersFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/clusters-file.html">v0.2.0</a><a href="clusters-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringInputOptionContainer/clustersFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringInputOptionContainer</a><span class="delimiter">/</span><span class="current">clustersFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>clusters</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p><p class="paragraph">Flag = <code class="lang-kotlin">--clusters</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html
new file mode 100644
index 00000000..a8a3294f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringInputOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-input-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringInputOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringInputOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr><span>Input</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringInputOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="426233298%2FProperties%2F769193423" anchor-label="clustersFile" id="426233298%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="clusters-file.html"><span>clusters</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="426233298%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="clusters-file.html">clustersFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Clustering input file as 2-column tabular format mapping sequences to representatives.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html
new file mode 100644
index 00000000..94734075
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusteringReassignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ClusteringReassignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Clustering</span><wbr><span>Reassign</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ClusteringReassignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-225050308%2FProperties%2F769193423" anchor-label="memberCover" id="-225050308%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="member-cover.html"><span>member</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-225050308%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1395366367%2FProperties%2F769193423" anchor-label="memoryLimit" id="1395366367%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="memory-limit.html"><span>memory</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1395366367%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Memory limit in GB</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-993157834%2FProperties%2F769193423" anchor-label="mutualCover" id="-993157834%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mutual-cover.html"><span>mutual</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-993157834%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html
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@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memberCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/member-cover.html">v0.2.0</a><a href="member-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/memberCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">memberCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>member</span><wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="member-cover.html">memberCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum coverage percentage of the cluster member sequence.</p><p class="paragraph">Flag = <code class="lang-kotlin">--member-cover</code> Default = <code class="lang-kotlin">80.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html
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@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memoryLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/memory-limit.html">v0.2.0</a><a href="memory-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/memoryLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">memoryLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>memory</span><wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-limit.html">memoryLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Memory limit in GB</p><p class="paragraph">Flag = <code class="lang-kotlin">--memory-limit</code> | <code class="lang-kotlin">-M</code> Default = <code class="lang-kotlin">"16G"</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html
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@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mutualCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
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+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-clustering-reassign-option-container/mutual-cover.html">v0.2.0</a><a href="mutual-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ClusteringReassignOptionContainer/mutualCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ClusteringReassignOptionContainer</a><span class="delimiter">/</span><span class="current">mutualCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mutual</span><wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mutual-cover.html">mutualCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Minimum mutual coverage percentage of the cluster member and representative sequence.</p><p class="paragraph">Flag = <code class="lang-kotlin">--mutual-cover</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html
new file mode 100644
index 00000000..02204f1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompBasedStatsAndMatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats-and-matrix-adjust/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.CompBasedStatsAndMatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">CompBasedStatsAndMatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Comp</span><wbr><span>Based</span><wbr><span>Stats</span><wbr><span>And</span><wbr><span>Matrix</span><wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">CompBasedStatsAndMatrixAdjust</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html
new file mode 100644
index 00000000..36e0d6ae
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompBasedStats</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-comp-based-stats/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.CompBasedStats///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">CompBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Comp</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">CompBasedStats</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html
new file mode 100644
index 00000000..851e6e49
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html
new file mode 100644
index 00000000..636e76af
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1722135784%2FFunctions%2F769193423" anchor-label="fromJson" id="-1722135784%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1722135784%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">CompositionBasedStats</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html
new file mode 100644
index 00000000..30b952c2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Deprecated1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-deprecated1/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Deprecated1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Deprecated1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Deprecated1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Deprecated1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html
new file mode 100644
index 00000000..037ac67f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Disabled</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-disabled/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Disabled///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Disabled</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Disabled</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Disabled</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html
new file mode 100644
index 00000000..d17d66eb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HauserAndMatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-and-matrix-adjust/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.HauserAndMatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">HauserAndMatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hauser</span><wbr><span>And</span><wbr><span>Matrix</span><wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HauserAndMatrixAdjust</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
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+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html
new file mode 100644
index 00000000..b27a03db
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HauserGlobal</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser-global/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.HauserGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">HauserGlobal</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hauser</span><wbr><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">HauserGlobal</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html
new file mode 100644
index 00000000..3bd954f4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Hauser</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-hauser/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.Hauser///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">Hauser</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Hauser</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Hauser</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html
new file mode 100644
index 00000000..e8cebc4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MatrixAdjust</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/-matrix-adjust/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats.MatrixAdjust///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">MatrixAdjust</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Matrix</span><wbr><span><span>Adjust</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MatrixAdjust</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html
new file mode 100644
index 00000000..6dedf602
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html
new file mode 100644
index 00000000..f3f4528a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html
new file mode 100644
index 00000000..fd01efb5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html
@@ -0,0 +1,375 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CompositionBasedStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">CompositionBasedStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Composition</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">CompositionBasedStats</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="1156476567%2FClasslikes%2F769193423" anchor-label="Disabled" id="1156476567%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-disabled/index.html">Disabled</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1156476567%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-disabled/index.html">Disabled</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1345908705%2FClasslikes%2F769193423" anchor-label="Hauser" id="-1345908705%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser/index.html">Hauser</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1345908705%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hauser/index.html">Hauser</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-43300597%2FClasslikes%2F769193423" anchor-label="Deprecated1" id="-43300597%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deprecated1/index.html">Deprecated1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-43300597%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-deprecated1/index.html">Deprecated1</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1798565744%2FClasslikes%2F769193423" anchor-label="HauserAndMatrixAdjust" id="1798565744%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser-and-matrix-adjust/index.html">HauserAndMatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1798565744%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hauser-and-matrix-adjust/index.html">HauserAndMatrixAdjust</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1314161589%2FClasslikes%2F769193423" anchor-label="MatrixAdjust" id="-1314161589%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-matrix-adjust/index.html">MatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1314161589%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-matrix-adjust/index.html">MatrixAdjust</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1922530230%2FClasslikes%2F769193423" anchor-label="CompBasedStats" id="1922530230%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-comp-based-stats/index.html">CompBasedStats</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1922530230%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-comp-based-stats/index.html">CompBasedStats</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1289092359%2FClasslikes%2F769193423" anchor-label="CompBasedStatsAndMatrixAdjust" id="-1289092359%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-comp-based-stats-and-matrix-adjust/index.html">CompBasedStatsAndMatrixAdjust</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1289092359%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-comp-based-stats-and-matrix-adjust/index.html">CompBasedStatsAndMatrixAdjust</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1985941602%2FClasslikes%2F769193423" anchor-label="HauserGlobal" id="1985941602%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hauser-global/index.html">HauserGlobal</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1985941602%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-hauser-global/index.html">HauserGlobal</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1937740372%2FClasslikes%2F769193423" anchor-label="Companion" id="-1937740372%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1937740372%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="200903428%2FProperties%2F769193423" anchor-label="cliValue" id="200903428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="200903428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-961387563%2FProperties%2F769193423" anchor-label="entries" id="-961387563%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-961387563%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1889244702%2FProperties%2F769193423" anchor-label="jsonName" id="-1889244702%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="json-name.html"><span>json</span><wbr><span><span>Name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1889244702%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1698664428%2FProperties%2F769193423" anchor-label="value" id="-1698664428%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1698664428%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1502677719%2FFunctions%2F769193423" anchor-label="toString" id="-1502677719%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1502677719%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-623174681%2FFunctions%2F769193423" anchor-label="valueOf" id="-623174681%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-623174681%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">CompositionBasedStats</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="447265075%2FFunctions%2F769193423" anchor-label="values" id="447265075%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="447265075%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html
new file mode 100644
index 00000000..c5174a4c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>jsonName</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html">v0.2.0</a><a href="json-name.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/jsonName/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">jsonName</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>json</span><wbr><span><span>Name</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="json-name.html">jsonName</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html
new file mode 100644
index 00000000..c5c78541
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html
new file mode 100644
index 00000000..01fbffe6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">CompositionBasedStats</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value.html
new file mode 100644
index 00000000..a503479c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../not-found-version.html?v=v0.2.0">v0.2.0</a><a href="value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html
new file mode 100644
index 00000000..6a05baa7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/CompositionBasedStats/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">CompositionBasedStats</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">CompositionBasedStats</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html
new file mode 100644
index 00000000..f3f41a71
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-int.html">v0.2.0</a><a href="from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html
new file mode 100644
index 00000000..b2f79c40
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html
new file mode 100644
index 00000000..027c84ca
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html
new file mode 100644
index 00000000..e16dc4c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="745952400%2FFunctions%2F769193423" anchor-label="fromInt" id="745952400%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="745952400%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1084611688%2FFunctions%2F769193423" anchor-label="fromJson" id="1084611688%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1084611688%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1495374212%2FFunctions%2F769193423" anchor-label="fromString" id="-1495374212%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1495374212%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Compression</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html
new file mode 100644
index 00000000..9e247b47
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-none/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html
new file mode 100644
index 00000000..137eb899
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ZLib</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-lib/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.ZLib///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">ZLib</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ZLib</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ZLib</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html
new file mode 100644
index 00000000..b3843aec
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ZStd</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/-z-std/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression.ZStd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Compression</a><span class="delimiter">/</span><span class="current">ZStd</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ZStd</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ZStd</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html
new file mode 100644
index 00000000..b1665f1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html
new file mode 100644
index 00000000..053b5d21
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html
new file mode 100644
index 00000000..93841ed8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html
@@ -0,0 +1,270 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Compression</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">Compression</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Compression</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">Compression</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1683116253%2FClasslikes%2F769193423" anchor-label="None" id="-1683116253%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1683116253%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1745088598%2FClasslikes%2F769193423" anchor-label="ZLib" id="1745088598%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-z-lib/index.html">ZLib</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1745088598%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-z-lib/index.html">ZLib</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-928875660%2FClasslikes%2F769193423" anchor-label="ZStd" id="-928875660%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-z-std/index.html">ZStd</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-928875660%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-z-std/index.html">ZStd</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-506339588%2FClasslikes%2F769193423" anchor-label="Companion" id="-506339588%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-506339588%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1494003636%2FProperties%2F769193423" anchor-label="cliValue" id="1494003636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1494003636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1297082661%2FProperties%2F769193423" anchor-label="entries" id="1297082661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1297082661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-209577511%2FFunctions%2F769193423" anchor-label="toString" id="-209577511%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-209577511%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1972586345%2FFunctions%2F769193423" anchor-label="valueOf" id="-1972586345%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1972586345%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Compression</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1835185693%2FFunctions%2F769193423" anchor-label="values" id="-1835185693%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1835185693%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html
new file mode 100644
index 00000000..6608716c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html
new file mode 100644
index 00000000..d14f1538
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Compression</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html
new file mode 100644
index 00000000..71e1e558
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Compression/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Compression</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Compression</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..ee5ffb6b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..69689b4b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html
new file mode 100644
index 00000000..88fdd1d1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1394249991%2FFunctions%2F769193423" anchor-label="fromJson" id="1394249991%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1394249991%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1353074715%2FFunctions%2F769193423" anchor-label="fromString" id="1353074715%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1353074715%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DNAExtensionAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html
new file mode 100644
index 00000000..08ed059c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>KSW</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-k-s-w/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.KSW///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">KSW</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>KSW</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">KSW</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html
new file mode 100644
index 00000000..87439c88
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>WFA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/-w-f-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm.WFA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">WFA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>WFA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">WFA</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html
new file mode 100644
index 00000000..91f6e1fb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html
new file mode 100644
index 00000000..d24174e4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html
new file mode 100644
index 00000000..e464f494
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DNAExtensionAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">DNAExtensionAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>DNAExtension</span><wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DNAExtensionAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-2133262419%2FClasslikes%2F769193423" anchor-label="KSW" id="-2133262419%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-k-s-w/index.html">KSW</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2133262419%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-k-s-w/index.html">KSW</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="759003088%2FClasslikes%2F769193423" anchor-label="WFA" id="759003088%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-w-f-a/index.html">WFA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="759003088%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-w-f-a/index.html">WFA</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-479990373%2FClasslikes%2F769193423" anchor-label="Companion" id="-479990373%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-479990373%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-306261707%2FProperties%2F769193423" anchor-label="cliValue" id="-306261707%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-306261707%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-285011068%2FProperties%2F769193423" anchor-label="entries" id="-285011068%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-285011068%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-2009842854%2FFunctions%2F769193423" anchor-label="toString" id="-2009842854%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009842854%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1208246120%2FFunctions%2F769193423" anchor-label="valueOf" id="-1208246120%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1208246120%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DNAExtensionAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="884725668%2FFunctions%2F769193423" anchor-label="values" id="884725668%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="884725668%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html
new file mode 100644
index 00000000..590e1e1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html
new file mode 100644
index 00000000..b89754cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DNAExtensionAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html
new file mode 100644
index 00000000..6e6c9f13
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DNAExtensionAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DNAExtensionAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html
new file mode 100644
index 00000000..ac2efa34
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BitScore</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-bit-score/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">BitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bit</span><wbr><span><span>Score</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BitScore</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html
new file mode 100644
index 00000000..18341ed0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html
new file mode 100644
index 00000000..604b47d9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html
new file mode 100644
index 00000000..add05b1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="383523570%2FFunctions%2F769193423" anchor-label="fromJson" id="383523570%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="383523570%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1568726266%2FFunctions%2F769193423" anchor-label="fromString" id="-1568726266%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1568726266%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DistributionType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html
new file mode 100644
index 00000000..2df1a621
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExpectValue</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/-expect-value/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType.ExpectValue///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">DistributionType</a><span class="delimiter">/</span><span class="current">ExpectValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Expect</span><wbr><span><span>Value</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ExpectValue</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html
new file mode 100644
index 00000000..a9800164
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html
new file mode 100644
index 00000000..2899d00f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html
new file mode 100644
index 00000000..6f7bfcab
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DistributionType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">DistributionType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Distribution</span><wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DistributionType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1985594694%2FClasslikes%2F769193423" anchor-label="BitScore" id="-1985594694%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bit-score/index.html">BitScore</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1985594694%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bit-score/index.html">BitScore</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1694865877%2FClasslikes%2F769193423" anchor-label="ExpectValue" id="-1694865877%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-expect-value/index.html">ExpectValue</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1694865877%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-expect-value/index.html">ExpectValue</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1997071994%2FClasslikes%2F769193423" anchor-label="Companion" id="-1997071994%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1997071994%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1584462826%2FProperties%2F769193423" anchor-label="cliValue" id="1584462826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1584462826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="884358703%2FProperties%2F769193423" anchor-label="entries" id="884358703%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="884358703%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-119118321%2FFunctions%2F769193423" anchor-label="toString" id="-119118321%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-119118321%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-815635507%2FFunctions%2F769193423" anchor-label="valueOf" id="-815635507%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-815635507%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="368257945%2FFunctions%2F769193423" anchor-label="values" id="368257945%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="368257945%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html
new file mode 100644
index 00000000..e7b68ddc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html
new file mode 100644
index 00000000..64ec7710
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DistributionType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html
new file mode 100644
index 00000000..b916b2af
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/DistributionType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">DistributionType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DistributionType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html
new file mode 100644
index 00000000..9ebdfb12
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html
new file mode 100644
index 00000000..bab3eeaa
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html
new file mode 100644
index 00000000..4a0a9686
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-971883588%2FFunctions%2F769193423" anchor-label="fromJson" id="-971883588%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-971883588%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-799899184%2FFunctions%2F769193423" anchor-label="fromString" id="-799899184%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-799899184%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">string<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">EdgeFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html
new file mode 100644
index 00000000..0438d456
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Default</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-default/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Default///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Default</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Default</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Default</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html
new file mode 100644
index 00000000..9b2ddf5b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Triplet</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/-triplet/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat.Triplet///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">Triplet</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Triplet</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Triplet</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html
new file mode 100644
index 00000000..680ff918
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html
new file mode 100644
index 00000000..fa7d0f69
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html
new file mode 100644
index 00000000..39afc3b5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EdgeFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">EdgeFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Edge</span><wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">EdgeFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1710637217%2FClasslikes%2F769193423" anchor-label="Triplet" id="-1710637217%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-triplet/index.html">Triplet</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1710637217%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-triplet/index.html">Triplet</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2022636406%2FClasslikes%2F769193423" anchor-label="Default" id="-2022636406%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-default/index.html">Default</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2022636406%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-default/index.html">Default</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="935442000%2FClasslikes%2F769193423" anchor-label="Companion" id="935442000%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="935442000%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="2094702048%2FProperties%2F769193423" anchor-label="cliValue" id="2094702048%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2094702048%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1177912697%2FProperties%2F769193423" anchor-label="entries" id="1177912697%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1177912697%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="391120901%2FFunctions%2F769193423" anchor-label="toString" id="391120901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="391120901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826983619%2FFunctions%2F769193423" anchor-label="valueOf" id="826983619%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826983619%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">EdgeFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1423387889%2FFunctions%2F769193423" anchor-label="values" id="-1423387889%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1423387889%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html
new file mode 100644
index 00000000..d5ffd1f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html
new file mode 100644
index 00000000..464b9d55
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
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+    } else {
+        const savedDarkMode = JSON.parse(storage)
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+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">EdgeFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html
new file mode 100644
index 00000000..6f99ab76
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/EdgeFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">EdgeFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">EdgeFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html
new file mode 100644
index 00000000..b319627c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BandedFast</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-fast/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.BandedFast///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">BandedFast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Banded</span><wbr><span><span>Fast</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BandedFast</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html
new file mode 100644
index 00000000..8044244f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BandedSlow</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-banded-slow/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.BandedSlow///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">BandedSlow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Banded</span><wbr><span><span>Slow</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BandedSlow</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html
new file mode 100644
index 00000000..53f50006
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html
new file mode 100644
index 00000000..7235e458
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html
new file mode 100644
index 00000000..5f196a06
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="375481868%2FFunctions%2F769193423" anchor-label="fromJson" id="375481868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="375481868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2001232864%2FFunctions%2F769193423" anchor-label="fromString" id="-2001232864%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2001232864%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ExtensionMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html
new file mode 100644
index 00000000..ef7a25e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Full</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-full/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Full///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Full</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Full</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Full</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html
new file mode 100644
index 00000000..65e82406
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Global</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/-global/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode.Global///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">Global</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Global</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Global</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html
new file mode 100644
index 00000000..c164d970
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html
new file mode 100644
index 00000000..7d1740ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html
new file mode 100644
index 00000000..55252c50
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html
@@ -0,0 +1,300 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ExtensionMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ExtensionMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Extension</span><wbr><span><span>Mode</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">ExtensionMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-2056021153%2FClasslikes%2F769193423" anchor-label="BandedFast" id="-2056021153%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-banded-fast/index.html">BandedFast</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2056021153%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-banded-fast/index.html">BandedFast</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1930986052%2FClasslikes%2F769193423" anchor-label="BandedSlow" id="1930986052%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-banded-slow/index.html">BandedSlow</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1930986052%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-banded-slow/index.html">BandedSlow</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1152437726%2FClasslikes%2F769193423" anchor-label="Full" id="1152437726%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-full/index.html">Full</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1152437726%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-full/index.html">Full</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2121306418%2FClasslikes%2F769193423" anchor-label="Global" id="2121306418%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-global/index.html">Global</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2121306418%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-global/index.html">Global</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="789364896%2FClasslikes%2F769193423" anchor-label="Companion" id="789364896%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="789364896%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1512240752%2FProperties%2F769193423" anchor-label="cliValue" id="-1512240752%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1512240752%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1570839607%2FProperties%2F769193423" anchor-label="entries" id="-1570839607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1570839607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-474718968%2FProperties%2F769193423" anchor-label="value" id="-474718968%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-474718968%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1079145397%2FFunctions%2F769193423" anchor-label="toString" id="1079145397%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1079145397%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1525077901%2FFunctions%2F769193423" anchor-label="valueOf" id="-1525077901%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1525077901%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ExtensionMode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-265131329%2FFunctions%2F769193423" anchor-label="values" id="-265131329%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-265131329%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html
new file mode 100644
index 00000000..3506cea9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html
new file mode 100644
index 00000000..09529475
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ExtensionMode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html
new file mode 100644
index 00000000..160d4924
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html">v0.2.0</a><a href="value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html
new file mode 100644
index 00000000..e10c4fdb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ExtensionMode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ExtensionMode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ExtensionMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html
new file mode 100644
index 00000000..b88d8ad0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>databaseFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/database-file.html">v0.2.0</a><a href="database-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralDBOptionContainer/databaseFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralDBOptionContainer</a><span class="delimiter">/</span><span class="current">databaseFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>database</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the target DIAMOND database file.</p><p class="paragraph">Flag = <code class="lang-kotlin">--db</code> | <code class="lang-kotlin">-d</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html
new file mode 100644
index 00000000..519b55cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralDBOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-d-b-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralDBOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralDBOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr><span>DBOption</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralDBOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1201470636%2FProperties%2F769193423" anchor-label="databaseFile" id="1201470636%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="database-file.html"><span>database</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1201470636%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="database-file.html">databaseFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the target DIAMOND database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html
new file mode 100644
index 00000000..3fcc0d29
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html
@@ -0,0 +1,168 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148927915%2FProperties%2F769193423" anchor-label="log" id="-148927915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log.html"><span><span>log</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148927915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="353783397%2FProperties%2F769193423" anchor-label="quiet" id="353783397%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="quiet.html"><span><span>quiet</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="353783397%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Disable all terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2129559264%2FProperties%2F769193423" anchor-label="tempDir" id="-2129559264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="temp-dir.html"><span>temp</span><wbr><span><span>Dir</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2129559264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Directory for temporary files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="665728912%2FProperties%2F769193423" anchor-label="threads" id="665728912%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="threads.html"><span><span>threads</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="665728912%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Number of CPU threads.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-357529641%2FProperties%2F769193423" anchor-label="verbose" id="-357529641%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="verbose.html"><span><span>verbose</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-357529641%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Enable more verbose terminal output.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html
new file mode 100644
index 00000000..10dbde76
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>log</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/log.html">v0.2.0</a><a href="log.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/log/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">log</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>log</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log.html">log</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable even more verbose terminal output, which is also written to a file named <code class="lang-kotlin">diamond.log</code> is the current working directory.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--log</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: how does this interact with <a href="quiet.html">quiet</a> and <a href="verbose.html">verbose</a>?</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html
new file mode 100644
index 00000000..27640d8d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>quiet</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/quiet.html">v0.2.0</a><a href="quiet.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/quiet/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">quiet</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>quiet</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="quiet.html">quiet</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Disable all terminal output.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--quiet</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: verify whether this is mutually exclusive with <a href="verbose.html">verbose</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html
new file mode 100644
index 00000000..f7c93f0d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tempDir</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/temp-dir.html">v0.2.0</a><a href="temp-dir.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/tempDir/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">tempDir</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>temp</span><wbr><span><span>Dir</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="temp-dir.html">tempDir</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Directory for temporary files.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--tmpdir/-t &lt;path&gt;</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">null</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html
new file mode 100644
index 00000000..e45983ea
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>threads</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/threads.html">v0.2.0</a><a href="threads.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/threads/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">threads</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>threads</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="threads.html">threads</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Number of CPU threads.</p><p class="paragraph">By default, the program will auto-detect and use all available virtual cores on the machine.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--threads/-p #</code></p></blockquote><p class="paragraph">Setting this to a value that is less than or equal to zero results in the option being omitted from the CLI call.</p><p class="paragraph">Default: <code class="lang-kotlin">0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html
new file mode 100644
index 00000000..871fe466
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>verbose</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-option-container/verbose.html">v0.2.0</a><a href="verbose.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOptionContainer/verbose/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOptionContainer</a><span class="delimiter">/</span><span class="current">verbose</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>verbose</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="verbose.html">verbose</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Enable more verbose terminal output.</p><blockquote class="quotation"><p class="paragraph"><code class="lang-kotlin">--verbose/-v</code></p></blockquote><p class="paragraph">Default: <code class="lang-kotlin">false</code></p><p class="paragraph">TODO: verify whether this is mutually exclusive with <a href="quiet.html">quiet</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html
new file mode 100644
index 00000000..077e462e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>header</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/header.html">v0.2.0</a><a href="header.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputHeaderOptionContainer/header/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOutputHeaderOptionContainer</a><span class="delimiter">/</span><span class="current">header</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>header</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="header.html">header</a><span class="token operator">: </span><a href="../-header-option/index.html">HeaderOption</a></div><p class="paragraph">Use header lines in tabular output format.</p><ul><li><p class="paragraph">Flag: <code class="lang-kotlin">--header</code></p></li><li><p class="paragraph">Default: <a href="../-header-option/-none/index.html">HeaderOption.None</a></p></li></ul></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html
new file mode 100644
index 00000000..b710f80c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOutputHeaderOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-header-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputHeaderOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOutputHeaderOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr><span>Output</span><wbr><span>Header</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOutputHeaderOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="654260134%2FProperties%2F769193423" anchor-label="header" id="654260134%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="header.html"><span><span>header</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="654260134%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="header.html">header</a><span class="token operator">: </span><a href="../-header-option/index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Use header lines in tabular output format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html
new file mode 100644
index 00000000..7cfa0251
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GeneralOutputOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GeneralOutputOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>General</span><wbr><span>Output</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">GeneralOutputOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-299774109%2FProperties%2F769193423" anchor-label="outputFile" id="-299774109%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-file.html"><span>output</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-299774109%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html
new file mode 100644
index 00000000..ad2c0d36
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-general-output-option-container/output-file.html">v0.2.0</a><a href="output-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GeneralOutputOptionContainer/outputFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GeneralOutputOptionContainer</a><span class="delimiter">/</span><span class="current">outputFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-file.html">outputFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Path to the output file. If this parameter is omitted, the results will be written to the standard output and all other program output will be suppressed.</p><ul><li><p class="paragraph">Flag = <code class="lang-kotlin">--out</code> | <code class="lang-kotlin">-o</code></p></li></ul></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..aacbf979
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..0c14fe36
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html
new file mode 100644
index 00000000..967771a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1431848815%2FFunctions%2F769193423" anchor-label="fromJson" id="1431848815%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1431848815%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-164710781%2FFunctions%2F769193423" anchor-label="fromString" id="-164710781%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-164710781%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">GraphAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..ffa09cde
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-greedy-vortex-cover/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.GreedyVortexCover///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr><span>Vortex</span><wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GreedyVortexCover</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html
new file mode 100644
index 00000000..7eb99898
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LengthSorted</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/-length-sorted/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm.LengthSorted///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">LengthSorted</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Length</span><wbr><span><span>Sorted</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LengthSorted</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html
new file mode 100644
index 00000000..53142835
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html
new file mode 100644
index 00000000..aed7ac19
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html
new file mode 100644
index 00000000..dd50cee9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GraphAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">GraphAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Graph</span><wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">GraphAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-65191393%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="-65191393%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65191393%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="748400373%2FClasslikes%2F769193423" anchor-label="LengthSorted" id="748400373%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-length-sorted/index.html">LengthSorted</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="748400373%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-length-sorted/index.html">LengthSorted</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1428220925%2FClasslikes%2F769193423" anchor-label="Companion" id="-1428220925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1428220925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2137965107%2FProperties%2F769193423" anchor-label="cliValue" id="-2137965107%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2137965107%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2006666260%2FProperties%2F769193423" anchor-label="entries" id="-2006666260%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2006666260%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="453421042%2FFunctions%2F769193423" anchor-label="toString" id="453421042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="453421042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2074613456%2FFunctions%2F769193423" anchor-label="valueOf" id="-2074613456%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2074613456%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1106283068%2FFunctions%2F769193423" anchor-label="values" id="1106283068%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1106283068%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html
new file mode 100644
index 00000000..c2055ff5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
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+    <div class="root">
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+    <div class="navigation--inner">
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+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
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+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html
new file mode 100644
index 00000000..5d498f57
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
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+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">GraphAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html
new file mode 100644
index 00000000..d60a3dce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
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+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/GraphAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">GraphAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">GraphAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
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+            </div>
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+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html
new file mode 100644
index 00000000..f217d045
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Enabled</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
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+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-enabled/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
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+</nav>
+        <div id="container">
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+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Enabled///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Enabled</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Enabled</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Enabled</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
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+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
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+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html
new file mode 100644
index 00000000..1e3ce8f3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-none/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html
new file mode 100644
index 00000000..ff8b36e8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Simple</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-simple/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Simple///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Simple</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Simple</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Simple</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html
new file mode 100644
index 00000000..5b4e7989
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Verbose</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/-verbose/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption.Verbose///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">Verbose</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Verbose</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Verbose</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html
new file mode 100644
index 00000000..6893e45a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html
new file mode 100644
index 00000000..9c5e2673
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html
@@ -0,0 +1,236 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HeaderOption</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">HeaderOption</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Header</span><wbr><span><span>Option</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">HeaderOption</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt; </span></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-85030359%2FClasslikes%2F769193423" anchor-label="None" id="-85030359%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-85030359%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-513404776%2FClasslikes%2F769193423" anchor-label="Enabled" id="-513404776%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-enabled/index.html">Enabled</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-513404776%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-enabled/index.html">Enabled</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="117825507%2FClasslikes%2F769193423" anchor-label="Simple" id="117825507%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simple/index.html">Simple</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="117825507%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-simple/index.html">Simple</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1649642265%2FClasslikes%2F769193423" anchor-label="Verbose" id="1649642265%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-verbose/index.html">Verbose</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1649642265%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-verbose/index.html">Verbose</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1105029717%2FProperties%2F769193423" anchor-label="entries" id="-1105029717%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1105029717%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1133963823%2FFunctions%2F769193423" anchor-label="valueOf" id="-1133963823%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1133963823%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">HeaderOption</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="304084125%2FFunctions%2F769193423" anchor-label="values" id="304084125%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="304084125%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html
new file mode 100644
index 00000000..92e04188
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">HeaderOption</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html
new file mode 100644
index 00000000..973cc5ff
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HeaderOption/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HeaderOption</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">HeaderOption</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html
new file mode 100644
index 00000000..b79eb7b7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>addSelfAln</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/add-self-aln.html">v0.2.0</a><a href="add-self-aln.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/addSelfAln/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">addSelfAln</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html
new file mode 100644
index 00000000..61baae2b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alnOut</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/aln-out.html">v0.2.0</a><a href="aln-out.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/alnOut/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">alnOut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>aln</span><wbr><span><span>Out</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html
new file mode 100644
index 00000000..e8b9cfd0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchorScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-score.html">v0.2.0</a><a href="anchor-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchorScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchorScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchor</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html
new file mode 100644
index 00000000..238a23fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchorWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchor-window.html">v0.2.0</a><a href="anchor-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchorWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchorWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchor</span><wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">12</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html
new file mode 100644
index 00000000..5959fbd0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>anchoredSwipe</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/anchored-swipe.html">v0.2.0</a><a href="anchored-swipe.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/anchoredSwipe/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">anchoredSwipe</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>anchored</span><wbr><span><span>Swipe</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html
new file mode 100644
index 00000000..8407f7fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ants</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ants.html">v0.2.0</a><a href="ants.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ants/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ants</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ants</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p><p class="paragraph">Default: <code class="lang-kotlin">100</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html
new file mode 100644
index 00000000..df8e3063
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>approxBacktrace</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/approx-backtrace.html">v0.2.0</a><a href="approx-backtrace.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/approxBacktrace/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">approxBacktrace</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>approx</span><wbr><span><span>Backtrace</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html
new file mode 100644
index 00000000..0640b35e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-cutoff.html">v0.2.0</a><a href="b-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html
new file mode 100644
index 00000000..f17ab1c2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bMatch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-match.html">v0.2.0</a><a href="b-match.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bMatch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bMatch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr><span><span>Match</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html
new file mode 100644
index 00000000..233ea618
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bMismatch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/b-mismatch.html">v0.2.0</a><a href="b-mismatch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bMismatch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bMismatch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>b</span><wbr><span><span>Mismatch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html
new file mode 100644
index 00000000..785c0b44
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bandBin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/band-bin.html">v0.2.0</a><a href="band-bin.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bandBin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bandBin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>band</span><wbr><span><span>Bin</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p><p class="paragraph">Default: <code class="lang-kotlin">24</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html
new file mode 100644
index 00000000..7ed80fd1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>bootstrapBlock</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/bootstrap-block.html">v0.2.0</a><a href="bootstrap-block.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/bootstrapBlock/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">bootstrapBlock</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>bootstrap</span><wbr><span><span>Block</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p><p class="paragraph">Default: <code class="lang-kotlin">1000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html
new file mode 100644
index 00000000..301b09b7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsAngle</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-angle.html">v0.2.0</a><a href="cbs-angle.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsAngle/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsAngle</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr><span><span>Angle</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html
new file mode 100644
index 00000000..ced55c91
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsErrTolerance</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-err-tolerance.html">v0.2.0</a><a href="cbs-err-tolerance.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsErrTolerance/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsErrTolerance</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.00000001</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html
new file mode 100644
index 00000000..bfbef9dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsItLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-it-limit.html">v0.2.0</a><a href="cbs-it-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsItLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsItLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html
new file mode 100644
index 00000000..9b201d44
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsMatrixScale</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-matrix-scale.html">v0.2.0</a><a href="cbs-matrix-scale.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsMatrixScale/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsMatrixScale</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p><p class="paragraph">Default: <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html
new file mode 100644
index 00000000..829e50f5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cbsWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cbs-window.html">v0.2.0</a><a href="cbs-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cbsWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cbsWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cbs</span><wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">40</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html
new file mode 100644
index 00000000..3ae15719
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>centroidFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/centroid-factor.html">v0.2.0</a><a href="centroid-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/centroidFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">centroidFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>centroid</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html
new file mode 100644
index 00000000..11aec46b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingLenCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-len-cap.html">v0.2.0</a><a href="chaining-len-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingLenCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingLenCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p><p class="paragraph">Default: <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html
new file mode 100644
index 00000000..48cefb7b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMaxGap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-gap.html">v0.2.0</a><a href="chaining-max-gap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMaxGap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMaxGap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html
new file mode 100644
index 00000000..a5807475
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMaxNodes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-max-nodes.html">v0.2.0</a><a href="chaining-max-nodes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMaxNodes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMaxNodes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html
new file mode 100644
index 00000000..3eccd033
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingMinNodes</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-min-nodes.html">v0.2.0</a><a href="chaining-min-nodes.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingMinNodes/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingMinNodes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p><p class="paragraph">Default: <code class="lang-kotlin">200</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html
new file mode 100644
index 00000000..0dbdd770
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingRangeCover</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-range-cover.html">v0.2.0</a><a href="chaining-range-cover.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingRangeCover/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingRangeCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p><p class="paragraph">Default = <code class="lang-kotlin">8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html
new file mode 100644
index 00000000..5bc9160b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chainingStackedHSPRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chaining-stacked-h-s-p-ratio.html">v0.2.0</a><a href="chaining-stacked-h-s-p-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chainingStackedHSPRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chainingStackedHSPRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html
new file mode 100644
index 00000000..03c153d1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>chunkSizeMultiplier</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/chunk-size-multiplier.html">v0.2.0</a><a href="chunk-size-multiplier.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/chunkSizeMultiplier/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">chunkSizeMultiplier</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p><p class="paragraph">Default: <code class="lang-kotlin">4</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html
new file mode 100644
index 00000000..d5ad407f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>classicBand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/classic-band.html">v0.2.0</a><a href="classic-band.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/classicBand/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">classicBand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>classic</span><wbr><span><span>Band</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html
new file mode 100644
index 00000000..d872c171
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterAlgo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-algo.html">v0.2.0</a><a href="cluster-algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterAlgo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterAlgo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span><span>Algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Clustering algorithm ('mcl')</p><p class="paragraph">TODO: actual values for this enum are dependent on compile flags, it seems     that "cascaded" is the only 'safe' option, "mcl" is dependent on a     compile flag.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-algo</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html
new file mode 100644
index 00000000..05e3e167
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterGraphFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-graph-file.html">v0.2.0</a><a href="cluster-graph-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterGraphFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterGraphFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-graph-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html
new file mode 100644
index 00000000..cb44616b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterRestart</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-restart.html">v0.2.0</a><a href="cluster-restart.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterRestart/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterRestart</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span><span>Restart</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Restart clustering from dumped graph.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-restart</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html
new file mode 100644
index 00000000..0c4e8a21
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterSimilarity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-similarity.html">v0.2.0</a><a href="cluster-similarity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterSimilarity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterSimilarity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span><span>Similarity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">Clustering similarity measure.</p><p class="paragraph">TODO: this is some sort of expression string, it's currently unclear what     its rules are.  This should be converted to a complex type for     validation.</p><p class="paragraph">TODO: only seems relevant to <code class="lang-kotlin">cluster</code>, <code class="lang-kotlin">deepclust</code>, <code class="lang-kotlin">linclust</code></p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-similarity</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html
new file mode 100644
index 00000000..ef0c0daf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>clusterThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cluster-threshold.html">v0.2.0</a><a href="cluster-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/clusterThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">clusterThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cluster</span><wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Threshold for the similarity measure.</p><p class="paragraph">Flag: <code class="lang-kotlin">--cluster-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html
new file mode 100644
index 00000000..99913d96
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>colBin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/col-bin.html">v0.2.0</a><a href="col-bin.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/colBin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">colBin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>col</span><wbr><span><span>Bin</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p><p class="paragraph">Default: <code class="lang-kotlin">400</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html
new file mode 100644
index 00000000..88529217
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cutoffScore8Bit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/cutoff-score8-bit.html">v0.2.0</a><a href="cutoff-score8-bit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/cutoffScore8Bit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">cutoffScore8Bit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p><p class="paragraph">Default: <code class="lang-kotlin">240</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html
new file mode 100644
index 00000000..934bb8b4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dExp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-exp.html">v0.2.0</a><a href="d-exp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dExp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dExp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>d</span><wbr><span><span>Exp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html
new file mode 100644
index 00000000..390d2ba7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dNew</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/d-new.html">v0.2.0</a><a href="d-new.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dNew/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dNew</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>d</span><wbr><span><span>New</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html
new file mode 100644
index 00000000..ea5e94ea
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dbType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/db-type.html">v0.2.0</a><a href="db-type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dbType/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dbType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>db</span><wbr><span><span>Type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-type.html">dbType</a><span class="token operator">: </span><a href="../-sequence-type/index.html">SequenceType</a></div><p class="paragraph">Type of sequences in database file (nucl/prot).</p><p class="paragraph">Flag: <code class="lang-kotlin">--dbtype</code></p><p class="paragraph">Default: <a href="../-sequence-type/-amino-acid/index.html">SequenceType.AminoAcid</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html
new file mode 100644
index 00000000..ce3c0ee6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>dequeBucketSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/deque-bucket-size.html">v0.2.0</a><a href="deque-bucket-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/dequeBucketSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">dequeBucketSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p><p class="paragraph">Default: <code class="lang-kotlin">524288</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html
new file mode 100644
index 00000000..46817d6a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagFilterCov</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-cov.html">v0.2.0</a><a href="diag-filter-cov.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagFilterCov/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagFilterCov</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html
new file mode 100644
index 00000000..a23bc4a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagFilterID</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-filter-i-d.html">v0.2.0</a><a href="diag-filter-i-d.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagFilterID/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagFilterID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html
new file mode 100644
index 00000000..99bd111b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diagMinEstimate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/diag-min-estimate.html">v0.2.0</a><a href="diag-min-estimate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/diagMinEstimate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">diagMinEstimate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p><p class="paragraph">Default: <code class="lang-kotlin">17</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html
new file mode 100644
index 00000000..dce96152
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>extYield</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ext-yield.html">v0.2.0</a><a href="ext-yield.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/extYield/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">extYield</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ext</span><wbr><span><span>Yield</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html
new file mode 100644
index 00000000..2b81699e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-cap.html">v0.2.0</a><a href="family-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/familyCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">familyCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html
new file mode 100644
index 00000000..2ddb8640
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>familyCountsFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/family-counts-file.html">v0.2.0</a><a href="family-counts-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/familyCountsFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">familyCountsFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html
new file mode 100644
index 00000000..4008cf8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fastTsv</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fast-tsv.html">v0.2.0</a><a href="fast-tsv.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fastTsv/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fastTsv</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>fast</span><wbr><span><span>Tsv</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html
new file mode 100644
index 00000000..3d0887e6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/fetch-size.html">v0.2.0</a><a href="fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>fetch</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Trace point fetch size.</p><p class="paragraph">Flag: <code class="lang-kotlin">--fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">4096u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html
new file mode 100644
index 00000000..f76bf366
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>file1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file1.html">v0.2.0</a><a href="file1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/file1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">file1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>file1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html
new file mode 100644
index 00000000..68aae86f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>file2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/file2.html">v0.2.0</a><a href="file2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/file2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">file2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>file2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html
new file mode 100644
index 00000000..c567944d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>freqThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/freq-threshold.html">v0.2.0</a><a href="freq-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/freqThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">freqThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>freq</span><wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html
new file mode 100644
index 00000000..735e7259
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fullSwLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/full-sw-len.html">v0.2.0</a><a href="full-sw-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/fullSwLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">fullSwLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html
new file mode 100644
index 00000000..ba7ff214
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterDiagBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-diag-bit-score.html">v0.2.0</a><a href="gapped-filter-diag-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterDiagBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterDiagBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p><p class="paragraph">Default: <code class="lang-kotlin">12.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html
new file mode 100644
index 00000000..ee5e9cdc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterEValue1</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-e-value1.html">v0.2.0</a><a href="gapped-filter-e-value1.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterEValue1/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterEValue1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p><p class="paragraph">Default: <code class="lang-kotlin">2000.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html
new file mode 100644
index 00000000..020c8375
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>gappedFilterWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/gapped-filter-window.html">v0.2.0</a><a href="gapped-filter-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/gappedFilterWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">gappedFilterWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">200</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html
new file mode 100644
index 00000000..8fd23835
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>graphAlgo</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/graph-algo.html">v0.2.0</a><a href="graph-algo.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/graphAlgo/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">graphAlgo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>graph</span><wbr><span><span>Algo</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../-graph-algorithm/index.html">GraphAlgorithm</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p><p class="paragraph">Default: <a href="../-graph-algorithm/-greedy-vortex-cover/index.html">GraphAlgorithm.GreedyVortexCover</a></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html
new file mode 100644
index 00000000..85906e82
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hammingExt</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hamming-ext.html">v0.2.0</a><a href="hamming-ext.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hammingExt/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hammingExt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hamming</span><wbr><span><span>Ext</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html
new file mode 100644
index 00000000..30259d0f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hardMasked</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hard-masked.html">v0.2.0</a><a href="hard-masked.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hardMasked/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hardMasked</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hard</span><wbr><span><span>Masked</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html
new file mode 100644
index 00000000..43ffeb46
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>hashJoinSwap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/hash-join-swap.html">v0.2.0</a><a href="hash-join-swap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/hashJoinSwap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">hashJoinSwap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html
new file mode 100644
index 00000000..ddb179d0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idLeft</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-left.html">v0.2.0</a><a href="id-left.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idLeft/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idLeft</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr><span><span>Left</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html
new file mode 100644
index 00000000..af258b59
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idN</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-n.html">v0.2.0</a><a href="id-n.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idN/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr><span><span>N</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html
new file mode 100644
index 00000000..5068b929
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>idRight</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/id-right.html">v0.2.0</a><a href="id-right.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/idRight/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">idRight</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>id</span><wbr><span><span>Right</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html
new file mode 100644
index 00000000..2c94c61c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html
@@ -0,0 +1,2568 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HiddenOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">HiddenOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hidden</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">HiddenOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster/index.html">Cluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-d-b-info/index.html">DBInfo</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-deep-clustering/index.html">DeepClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-get-seq/index.html">GetSeq</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-linear-cluster/index.html">LinearCluster</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-d-b/index.html">MakeDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-make-index/index.html">MakeIndex</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-merge-d-a-a/index.html">MergeDAA</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-prep-d-b/index.html">PrepDB</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-reassign-clusters/index.html">ReassignClusters</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-recompute-clustering/index.html">RecomputeClustering</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-148330869%2FProperties%2F769193423" anchor-label="addSelfAln" id="-148330869%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="add-self-aln.html"><span>add</span><wbr><span>Self</span><wbr><span><span>Aln</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-148330869%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="add-self-aln.html">addSelfAln</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--add-self-aln</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1742422614%2FProperties%2F769193423" anchor-label="alnOut" id="1742422614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="aln-out.html"><span>aln</span><wbr><span><span>Out</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1742422614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="aln-out.html">alnOut</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--aln-out</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-518624877%2FProperties%2F769193423" anchor-label="anchoredSwipe" id="-518624877%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchored-swipe.html"><span>anchored</span><wbr><span><span>Swipe</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-518624877%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchored-swipe.html">anchoredSwipe</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchored-swipe</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1112084764%2FProperties%2F769193423" anchor-label="anchorScore" id="1112084764%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchor-score.html"><span>anchor</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1112084764%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-score.html">anchorScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1414199236%2FProperties%2F769193423" anchor-label="anchorWindow" id="-1414199236%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="anchor-window.html"><span>anchor</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1414199236%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="anchor-window.html">anchorWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--anchor-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1367062091%2FProperties%2F769193423" anchor-label="ants" id="-1367062091%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ants.html"><span><span>ants</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1367062091%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ants.html">ants</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ants</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-328411115%2FProperties%2F769193423" anchor-label="approxBacktrace" id="-328411115%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="approx-backtrace.html"><span>approx</span><wbr><span><span>Backtrace</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-328411115%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="approx-backtrace.html">approxBacktrace</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--approx-backtrace</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2101789447%2FProperties%2F769193423" anchor-label="bandBin" id="2101789447%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="band-bin.html"><span>band</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2101789447%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="band-bin.html">bandBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--band-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1035388234%2FProperties%2F769193423" anchor-label="bCutoff" id="1035388234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-cutoff.html"><span>b</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1035388234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-cutoff.html">bCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bcutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-14703234%2FProperties%2F769193423" anchor-label="bMatch" id="-14703234%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-match.html"><span>b</span><wbr><span><span>Match</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-14703234%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-match.html">bMatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2078212105%2FProperties%2F769193423" anchor-label="bMismatch" id="2078212105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="b-mismatch.html"><span>b</span><wbr><span><span>Mismatch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2078212105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="b-mismatch.html">bMismatch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bmismatch</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1301379266%2FProperties%2F769193423" anchor-label="bootstrapBlock" id="1301379266%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="bootstrap-block.html"><span>bootstrap</span><wbr><span><span>Block</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1301379266%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="bootstrap-block.html">bootstrapBlock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--bootstrap-block</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1954955966%2FProperties%2F769193423" anchor-label="cbsAngle" id="-1954955966%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-angle.html"><span>cbs</span><wbr><span><span>Angle</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1954955966%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-angle.html">cbsAngle</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-angle</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="888636061%2FProperties%2F769193423" anchor-label="cbsErrTolerance" id="888636061%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-err-tolerance.html"><span>cbs</span><wbr><span>Err</span><wbr><span><span>Tolerance</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="888636061%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-err-tolerance.html">cbsErrTolerance</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-err-tolerance</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1150542491%2FProperties%2F769193423" anchor-label="cbsItLimit" id="-1150542491%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-it-limit.html"><span>cbs</span><wbr><span>It</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1150542491%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-it-limit.html">cbsItLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-it-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-790326580%2FProperties%2F769193423" anchor-label="cbsMatrixScale" id="-790326580%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-matrix-scale.html"><span>cbs</span><wbr><span>Matrix</span><wbr><span><span>Scale</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-790326580%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-matrix-scale.html">cbsMatrixScale</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-matrix-scale</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-386800171%2FProperties%2F769193423" anchor-label="cbsWindow" id="-386800171%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cbs-window.html"><span>cbs</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-386800171%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cbs-window.html">cbsWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cbs-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1827677778%2FProperties%2F769193423" anchor-label="centroidFactor" id="1827677778%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="centroid-factor.html"><span>centroid</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1827677778%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="centroid-factor.html">centroidFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--centroid-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1631396349%2FProperties%2F769193423" anchor-label="chainingLenCap" id="-1631396349%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-len-cap.html"><span>chaining</span><wbr><span>Len</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1631396349%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-len-cap.html">chainingLenCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-len-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="291242574%2FProperties%2F769193423" anchor-label="chainingMaxGap" id="291242574%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-max-gap.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Gap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="291242574%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-gap.html">chainingMaxGap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxgap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1331335917%2FProperties%2F769193423" anchor-label="chainingMaxNodes" id="-1331335917%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-max-nodes.html"><span>chaining</span><wbr><span>Max</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1331335917%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-max-nodes.html">chainingMaxNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-maxnodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="554670465%2FProperties%2F769193423" anchor-label="chainingMinNodes" id="554670465%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-min-nodes.html"><span>chaining</span><wbr><span>Min</span><wbr><span><span>Nodes</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="554670465%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-min-nodes.html">chainingMinNodes</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-min-nodes</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1864907738%2FProperties%2F769193423" anchor-label="chainingRangeCover" id="-1864907738%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-range-cover.html"><span>chaining</span><wbr><span>Range</span><wbr><span><span>Cover</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1864907738%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-range-cover.html">chainingRangeCover</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-range-cover</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-82660851%2FProperties%2F769193423" anchor-label="chainingStackedHSPRatio" id="-82660851%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chaining-stacked-h-s-p-ratio.html"><span>chaining</span><wbr><span>Stacked</span><wbr><span><span>HSPRatio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-82660851%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chaining-stacked-h-s-p-ratio.html">chainingStackedHSPRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chaining-stacked-hsp-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2013210166%2FProperties%2F769193423" anchor-label="chunkSizeMultiplier" id="-2013210166%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="chunk-size-multiplier.html"><span>chunk</span><wbr><span>Size</span><wbr><span><span>Multiplier</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2013210166%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="chunk-size-multiplier.html">chunkSizeMultiplier</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--chunk-size-multiplier</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1419758418%2FProperties%2F769193423" anchor-label="classicBand" id="1419758418%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="classic-band.html"><span>classic</span><wbr><span><span>Band</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1419758418%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="classic-band.html">classicBand</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--classic-band</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="210818188%2FProperties%2F769193423" anchor-label="clusterAlgo" id="210818188%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-algo.html"><span>cluster</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210818188%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-algo.html">clusterAlgo</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering algorithm ('mcl')</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1389821073%2FProperties%2F769193423" anchor-label="clusterGraphFile" id="1389821073%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-graph-file.html"><span>cluster</span><wbr><span>Graph</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1389821073%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-graph-file.html">clusterGraphFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Filename for dumping the graph or reading the graph if cluster-restart.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846297204%2FProperties%2F769193423" anchor-label="clusterRestart" id="-1846297204%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-restart.html"><span>cluster</span><wbr><span><span>Restart</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846297204%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-restart.html">clusterRestart</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Restart clustering from dumped graph.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404632964%2FProperties%2F769193423" anchor-label="clusterSimilarity" id="-1404632964%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-similarity.html"><span>cluster</span><wbr><span><span>Similarity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404632964%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-similarity.html">clusterSimilarity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">Clustering similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-816918736%2FProperties%2F769193423" anchor-label="clusterThreshold" id="-816918736%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cluster-threshold.html"><span>cluster</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-816918736%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cluster-threshold.html">clusterThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Threshold for the similarity measure.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1267790106%2FProperties%2F769193423" anchor-label="colBin" id="1267790106%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="col-bin.html"><span>col</span><wbr><span><span>Bin</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1267790106%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="col-bin.html">colBin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--col-bin</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1678807231%2FProperties%2F769193423" anchor-label="cutoffScore8Bit" id="1678807231%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cutoff-score8-bit.html"><span>cutoff</span><wbr><span><span>Score8Bit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1678807231%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="cutoff-score8-bit.html">cutoffScore8Bit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--cutoff-score-8bit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1246513975%2FProperties%2F769193423" anchor-label="dbType" id="-1246513975%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="db-type.html"><span>db</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1246513975%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="db-type.html">dbType</a><span class="token operator">: </span><a href="../-sequence-type/index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Type of sequences in database file (nucl/prot).</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1208640494%2FProperties%2F769193423" anchor-label="dequeBucketSize" id="1208640494%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="deque-bucket-size.html"><span>deque</span><wbr><span>Bucket</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1208640494%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="deque-bucket-size.html">dequeBucketSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--deque_bucket_size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024936104%2FProperties%2F769193423" anchor-label="dExp" id="2024936104%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="d-exp.html"><span>d</span><wbr><span><span>Exp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024936104%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-exp.html">dExp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_exp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991433614%2FProperties%2F769193423" anchor-label="diagFilterCov" id="-1991433614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-filter-cov.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991433614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-cov.html">diagFilterCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="992930371%2FProperties%2F769193423" anchor-label="diagFilterID" id="992930371%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-filter-i-d.html"><span>diag</span><wbr><span>Filter</span><wbr><span><span>ID</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="992930371%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-filter-i-d.html">diagFilterID</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-filter-id</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1695637258%2FProperties%2F769193423" anchor-label="diagMinEstimate" id="1695637258%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="diag-min-estimate.html"><span>diag</span><wbr><span>Min</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1695637258%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="diag-min-estimate.html">diagMinEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--diag-min-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1141351291%2FProperties%2F769193423" anchor-label="dNew" id="-1141351291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="d-new.html"><span>d</span><wbr><span><span>New</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1141351291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="d-new.html">dNew</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--d_new</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1369654987%2FProperties%2F769193423" anchor-label="extYield" id="-1369654987%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ext-yield.html"><span>ext</span><wbr><span><span>Yield</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1369654987%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ext-yield.html">extYield</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ext-yield</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-136790965%2FProperties%2F769193423" anchor-label="familyCap" id="-136790965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-cap.html"><span>family</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136790965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-cap.html">familyCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="118651581%2FProperties%2F769193423" anchor-label="familyCountsFile" id="118651581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="family-counts-file.html"><span>family</span><wbr><span>Counts</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="118651581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="family-counts-file.html">familyCountsFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--family-counts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896688094%2FProperties%2F769193423" anchor-label="fastTsv" id="1896688094%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fast-tsv.html"><span>fast</span><wbr><span><span>Tsv</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896688094%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fast-tsv.html">fastTsv</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--fast-tsv</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1243695326%2FProperties%2F769193423" anchor-label="fetchSize" id="1243695326%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="fetch-size.html"><span>fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1243695326%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="fetch-size.html">fetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Trace point fetch size.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1859034172%2FProperties%2F769193423" anchor-label="file1" id="-1859034172%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file1.html"><span><span>file1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1859034172%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file1.html">file1</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828014365%2FProperties%2F769193423" anchor-label="file2" id="-1828014365%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="file2.html"><span><span>file2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828014365%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="file2.html">file2</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--file2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1498113306%2FProperties%2F769193423" anchor-label="freqThreshold" id="-1498113306%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="freq-threshold.html"><span>freq</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1498113306%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="freq-threshold.html">freqThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--freq-treshold</code> // TYPO: This typo exists in the diamond cli source.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2024528087%2FProperties%2F769193423" anchor-label="fullSwLen" id="2024528087%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="full-sw-len.html"><span>full</span><wbr><span>Sw</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2024528087%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="full-sw-len.html">fullSwLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--full-sw-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-525203264%2FProperties%2F769193423" anchor-label="gappedFilterDiagBitScore" id="-525203264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-diag-bit-score.html"><span>gapped</span><wbr><span>Filter</span><wbr><span>Diag</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-525203264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-diag-bit-score.html">gappedFilterDiagBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-diag-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="675976389%2FProperties%2F769193423" anchor-label="gappedFilterEValue1" id="675976389%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-e-value1.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>EValue1</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="675976389%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-e-value1.html">gappedFilterEValue1</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-evalue1</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-65644256%2FProperties%2F769193423" anchor-label="gappedFilterWindow" id="-65644256%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="gapped-filter-window.html"><span>gapped</span><wbr><span>Filter</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-65644256%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="gapped-filter-window.html">gappedFilterWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--gapped-filter-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1681847112%2FProperties%2F769193423" anchor-label="graphAlgo" id="-1681847112%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="graph-algo.html"><span>graph</span><wbr><span><span>Algo</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1681847112%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="graph-algo.html">graphAlgo</a><span class="token operator">: </span><a href="../-graph-algorithm/index.html">GraphAlgorithm</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--graph-algo</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1302849321%2FProperties%2F769193423" anchor-label="hammingExt" id="1302849321%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hamming-ext.html"><span>hamming</span><wbr><span><span>Ext</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1302849321%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hamming-ext.html">hammingExt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hamming-ext</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-149023733%2FProperties%2F769193423" anchor-label="hardMasked" id="-149023733%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hard-masked.html"><span>hard</span><wbr><span><span>Masked</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-149023733%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hard-masked.html">hardMasked</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hard-masked</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1017727754%2FProperties%2F769193423" anchor-label="hashJoinSwap" id="-1017727754%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="hash-join-swap.html"><span>hash</span><wbr><span>Join</span><wbr><span><span>Swap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1017727754%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="hash-join-swap.html">hashJoinSwap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--hash_join_swap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480873185%2FProperties%2F769193423" anchor-label="idLeft" id="-480873185%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-left.html"><span>id</span><wbr><span><span>Left</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480873185%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-left.html">idLeft</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idl</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-873790426%2FProperties%2F769193423" anchor-label="idN" id="-873790426%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-n.html"><span>id</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-873790426%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-n.html">idN</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idn</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788758856%2FProperties%2F769193423" anchor-label="idRight" id="-788758856%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="id-right.html"><span>id</span><wbr><span><span>Right</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788758856%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="id-right.html">idRight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--idr</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1538327196%2FProperties%2F769193423" anchor-label="joinHTFactor" id="1538327196%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-h-t-factor.html"><span>join</span><wbr><span><span>HTFactor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1538327196%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960279885%2FProperties%2F769193423" anchor-label="joinSplitKeyLen" id="-1960279885%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-split-key-len.html"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960279885%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2115694920%2FProperties%2F769193423" anchor-label="joinSplitSize" id="2115694920%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="join-split-size.html"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2115694920%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2058431822%2FProperties%2F769193423" anchor-label="key2" id="2058431822%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key2.html"><span><span>key2</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2058431822%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="764522866%2FProperties%2F769193423" anchor-label="leftMostInterval" id="764522866%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="left-most-interval.html"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="764522866%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1846690501%2FProperties%2F769193423" anchor-label="lengthRatioThreshold" id="-1846690501%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="length-ratio-threshold.html"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1846690501%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1763753318%2FProperties%2F769193423" anchor-label="loadBalancing" id="1763753318%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="load-balancing.html"><span>load</span><wbr><span><span>Balancing</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1763753318%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="784300187%2FProperties%2F769193423" anchor-label="logExtend" id="784300187%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-extend.html"><span>log</span><wbr><span><span>Extend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="784300187%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1361968579%2FProperties%2F769193423" anchor-label="logQuery" id="-1361968579%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-query.html"><span>log</span><wbr><span><span>Query</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1361968579%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1309559897%2FProperties%2F769193423" anchor-label="logSubject" id="1309559897%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="log-subject.html"><span>log</span><wbr><span><span>Subject</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1309559897%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-91106895%2FProperties%2F769193423" anchor-label="mapAny" id="-91106895%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="map-any.html"><span>map</span><wbr><span><span>Any</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-91106895%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312506380%2FProperties%2F769193423" anchor-label="maxCells" id="-1312506380%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-cells.html"><span>max</span><wbr><span><span>Cells</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312506380%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1870248362%2FProperties%2F769193423" anchor-label="maximumSeedFrequency" id="-1870248362%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="maximum-seed-frequency.html"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1870248362%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Maximum seed frequency.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="502882155%2FProperties%2F769193423" anchor-label="maxIndirection" id="502882155%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-indirection.html"><span>max</span><wbr><span><span>Indirection</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="502882155%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="698501423%2FProperties%2F769193423" anchor-label="maxMotifLen" id="698501423%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-motif-len.html"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="698501423%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-424601729%2FProperties%2F769193423" anchor-label="maxSwipeDp" id="-424601729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="max-swipe-dp.html"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-424601729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="413976457%2FProperties%2F769193423" anchor-label="mclChunkSize" id="413976457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-chunk-size.html"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="413976457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL chunk size per thread.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2110745592%2FProperties%2F769193423" anchor-label="mclExpansion" id="2110745592%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-expansion.html"><span>mcl</span><wbr><span><span>Expansion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2110745592%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL expansion coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1015705069%2FProperties%2F769193423" anchor-label="mclInflation" id="1015705069%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-inflation.html"><span>mcl</span><wbr><span><span>Inflation</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1015705069%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL inflation coefficient.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-68838819%2FProperties%2F769193423" anchor-label="mclMaxIterations" id="-68838819%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-max-iterations.html"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-68838819%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">MCL maximum iterations.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1896649145%2FProperties%2F769193423" anchor-label="mclNonSymmetric" id="1896649145%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-non-symmetric.html"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1896649145%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-889429434%2FProperties%2F769193423" anchor-label="mclSparsitySwitch" id="-889429434%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-sparsity-switch.html"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-889429434%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">MCL switch to sparse matrix computation.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1354617576%2FProperties%2F769193423" anchor-label="mclStats" id="-1354617576%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="mcl-stats.html"><span>mcl</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1354617576%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Some stats about the connected components in MCL.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="581266860%2FProperties%2F769193423" anchor-label="memoryIntervals" id="581266860%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="memory-intervals.html"><span>memory</span><wbr><span><span>Intervals</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="581266860%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="311928833%2FProperties%2F769193423" anchor-label="minBandOverlap" id="311928833%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-band-overlap.html"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="311928833%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-974995659%2FProperties%2F769193423" anchor-label="minimizerWindow" id="-974995659%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="minimizer-window.html"><span>minimizer</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-974995659%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1504677105%2FProperties%2F769193423" anchor-label="minLenRatio" id="1504677105%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-len-ratio.html"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1504677105%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-137862661%2FProperties%2F769193423" anchor-label="minRealignOverhang" id="-137862661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-realign-overhang.html"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-137862661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1787264248%2FProperties%2F769193423" anchor-label="minTaskTracePts" id="1787264248%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="min-task-trace-pts.html"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1787264248%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1461660446%2FProperties%2F769193423" anchor-label="motifMaskFile" id="-1461660446%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="motif-mask-file.html"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1461660446%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1731232607%2FProperties%2F769193423" anchor-label="narrowBandCov" id="1731232607%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="narrow-band-cov.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1731232607%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1826117662%2FProperties%2F769193423" anchor-label="narrowBandFactor" id="-1826117662%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="narrow-band-factor.html"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1826117662%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-787763531%2FProperties%2F769193423" anchor-label="neighborhoodScore" id="-787763531%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="neighborhood-score.html"><span>neighborhood</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-787763531%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="211706296%2FProperties%2F769193423" anchor-label="neighbors" id="211706296%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="neighbors.html"><span><span>neighbors</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="211706296%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1095134096%2FProperties%2F769193423" anchor-label="no8BitExtension" id="1095134096%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no8-bit-extension.html"><span>no8Bit</span><wbr><span><span>Extension</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1095134096%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-57521291%2FProperties%2F769193423" anchor-label="noChainingMergeHSPs" id="-57521291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-chaining-merge-h-s-ps.html"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-57521291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="538936682%2FProperties%2F769193423" anchor-label="noDict" id="538936682%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-dict.html"><span>no</span><wbr><span><span>Dict</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="538936682%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1817012587%2FProperties%2F769193423" anchor-label="noForwardFp" id="1817012587%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-forward-fp.html"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1817012587%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1799227046%2FProperties%2F769193423" anchor-label="noLogFile" id="-1799227046%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-log-file.html"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1799227046%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="314674291%2FProperties%2F769193423" anchor-label="noReextend" id="314674291%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reextend.html"><span>no</span><wbr><span><span>Reextend</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="314674291%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="826071581%2FProperties%2F769193423" anchor-label="noRefMasking" id="826071581%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-ref-masking.html"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="826071581%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-425138273%2FProperties%2F769193423" anchor-label="noReorder" id="-425138273%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-reorder.html"><span>no</span><wbr><span><span>Reorder</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-425138273%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219348040%2FProperties%2F769193423" anchor-label="noSwipeRealign" id="219348040%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="no-swipe-realign.html"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219348040%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="551476433%2FProperties%2F769193423" anchor-label="oidList" id="551476433%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="oid-list.html"><span>oid</span><wbr><span><span>List</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="551476433%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344124330%2FProperties%2F769193423" anchor-label="outputFp" id="-1344124330%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-fp.html"><span>output</span><wbr><span><span>Fp</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344124330%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-501773344%2FProperties%2F769193423" anchor-label="outputHits" id="-501773344%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-hits.html"><span>output</span><wbr><span><span>Hits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-501773344%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2039628748%2FProperties%2F769193423" anchor-label="pAlign" id="2039628748%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="p-align.html"><span>p</span><wbr><span><span>Align</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2039628748%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1336813457%2FProperties%2F769193423" anchor-label="pathCutoff" id="-1336813457%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="path-cutoff.html"><span>path</span><wbr><span><span>Cutoff</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1336813457%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1432141925%2FProperties%2F769193423" anchor-label="pBest" id="1432141925%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="p-best.html"><span>p</span><wbr><span><span>Best</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1432141925%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1737357983%2FProperties%2F769193423" anchor-label="pipelineShort" id="1737357983%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="pipeline-short.html"><span>pipeline</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1737357983%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1088843950%2FProperties%2F769193423" anchor-label="prefixScan" id="-1088843950%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="prefix-scan.html"><span>prefix</span><wbr><span><span>Scan</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1088843950%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-771300006%2FProperties%2F769193423" anchor-label="queryCount" id="-771300006%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-count.html"><span>query</span><wbr><span><span>Count</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-771300006%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-154733088%2FProperties%2F769193423" anchor-label="queryMatchDistanceThreshold" id="-154733088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-match-distance-threshold.html"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-154733088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-716062832%2FProperties%2F769193423" anchor-label="queryMemory" id="-716062832%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="query-memory.html"><span>query</span><wbr><span><span>Memory</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-716062832%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="958984815%2FProperties%2F769193423" anchor-label="radixBits" id="958984815%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="radix-bits.html"><span>radix</span><wbr><span><span>Bits</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="958984815%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1404902164%2FProperties%2F769193423" anchor-label="radixClusterBuffered" id="-1404902164%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="radix-cluster-buffered.html"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1404902164%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1687360614%2FProperties%2F769193423" anchor-label="rankFactor" id="1687360614%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="rank-factor.html"><span>rank</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1687360614%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1828163855%2FProperties%2F769193423" anchor-label="rankingCutoffBitScore" id="-1828163855%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ranking-cutoff-bit-score.html"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1828163855%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="382424487%2FProperties%2F769193423" anchor-label="rankingScoreDropFactor" id="382424487%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ranking-score-drop-factor.html"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="382424487%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-484481999%2FProperties%2F769193423" anchor-label="raw" id="-484481999%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="raw.html"><span><span>raw</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-484481999%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-597893001%2FProperties%2F769193423" anchor-label="reassignMax" id="-597893001%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-max.html"><span>reassign</span><wbr><span><span>Max</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-597893001%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1462585356%2FProperties%2F769193423" anchor-label="reassignOverlap" id="-1462585356%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-overlap.html"><span>reassign</span><wbr><span><span>Overlap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1462585356%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-543768528%2FProperties%2F769193423" anchor-label="reassignRatio" id="-543768528%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reassign-ratio.html"><span>reassign</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-543768528%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="887396687%2FProperties%2F769193423" anchor-label="relaxedEValueFactor" id="887396687%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="relaxed-e-value-factor.html"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="887396687%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1844053780%2FProperties%2F769193423" anchor-label="resume" id="1844053780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="resume.html"><span><span>resume</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1844053780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><div class="brief "><p class="paragraph">TODO: this flag appears to be unused.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-698662729%2FProperties%2F769193423" anchor-label="reverse" id="-698662729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="reverse.html"><span><span>reverse</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-698662729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1703690368%2FProperties%2F769193423" anchor-label="rho" id="1703690368%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="rho.html"><span><span>rho</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1703690368%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491805264%2FProperties%2F769193423" anchor-label="scoreEstimateFactor" id="-1491805264%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="score-estimate-factor.html"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491805264%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1255465512%2FProperties%2F769193423" anchor-label="scoreRatio" id="1255465512%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="score-ratio.html"><span>score</span><wbr><span><span>Ratio</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1255465512%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="345191995%2FProperties%2F769193423" anchor-label="seedHitDensity" id="345191995%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-hit-density.html"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="345191995%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="803778680%2FProperties%2F769193423" anchor-label="seedWeight" id="803778680%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="seed-weight.html"><span>seed</span><wbr><span><span>Weight</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="803778680%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010260437%2FProperties%2F769193423" anchor-label="self" id="1010260437%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="self.html"><span><span>self</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010260437%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="531595620%2FProperties%2F769193423" anchor-label="shortQueryMaxLen" id="531595620%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-query-max-len.html"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="531595620%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-611613122%2FProperties%2F769193423" anchor-label="shortQueryUngappedBitScore" id="-611613122%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-query-ungapped-bit-score.html"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-611613122%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1260327780%2FProperties%2F769193423" anchor-label="shortSeqIDs" id="1260327780%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="short-seq-i-ds.html"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1260327780%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="772863127%2FProperties%2F769193423" anchor-label="simpleFreq" id="772863127%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="simple-freq.html"><span>simple</span><wbr><span><span>Freq</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="772863127%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1599498100%2FProperties%2F769193423" anchor-label="sketchSize" id="1599498100%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sketch-size.html"><span>sketch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1599498100%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2095249081%2FProperties%2F769193423" anchor-label="sortJoin" id="2095249081%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="sort-join.html"><span>sort</span><wbr><span><span>Join</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2095249081%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1380575138%2FProperties%2F769193423" anchor-label="spacePenalty" id="-1380575138%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="space-penalty.html"><span>space</span><wbr><span><span>Penalty</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1380575138%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="452126401%2FProperties%2F769193423" anchor-label="storeQueryQuality" id="452126401%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="store-query-quality.html"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="452126401%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="928853742%2FProperties%2F769193423" anchor-label="strictGVC" id="928853742%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="strict-g-v-c.html"><span>strict</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="928853742%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-132117777%2FProperties%2F769193423" anchor-label="superblock" id="-132117777%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="superblock.html"><span><span>superblock</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-132117777%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="805736237%2FProperties%2F769193423" anchor-label="swipeChunkSize" id="805736237%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe-chunk-size.html"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="805736237%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-829893671%2FProperties%2F769193423" anchor-label="swipeTaskSize" id="-829893671%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="swipe-task-size.html"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-829893671%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-471159929%2FProperties%2F769193423" anchor-label="tantanMaxRepeatOffset" id="-471159929%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-max-repeat-offset.html"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-471159929%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Maximum tandem repeat period to consider (50)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1559791631%2FProperties%2F769193423" anchor-label="tantanUngapped" id="1559791631%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tantan-ungapped.html"><span>tantan</span><wbr><span><span>Ungapped</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1559791631%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Use tantan masking in ungapped mode</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-788126729%2FProperties%2F769193423" anchor-label="targetBias" id="-788126729%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-bias.html"><span>target</span><wbr><span><span>Bias</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-788126729%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1426271567%2FProperties%2F769193423" anchor-label="targetFetchSize" id="1426271567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-fetch-size.html"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1426271567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Number of target sequences to fetch for seed extension.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1834509571%2FProperties%2F769193423" anchor-label="targetHardCap" id="1834509571%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-hard-cap.html"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1834509571%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="793349638%2FProperties%2F769193423" anchor-label="targetParallelVerbosity" id="793349638%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="target-parallel-verbosity.html"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="793349638%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827490126%2FProperties%2F769193423" anchor-label="tileSize" id="-827490126%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tile-size.html"><span>tile</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827490126%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-264781032%2FProperties%2F769193423" anchor-label="timeout" id="-264781032%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="timeout.html"><span><span>timeout</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-264781032%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1362582481%2FProperties%2F769193423" anchor-label="tracePtFetchSize" id="-1362582481%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="trace-pt-fetch-size.html"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1362582481%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1566467442%2FProperties%2F769193423" anchor-label="transcriptLenEstimate" id="1566467442%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="transcript-len-estimate.html"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1566467442%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="219403715%2FProperties%2F769193423" anchor-label="tree" id="219403715%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tree.html"><span><span>tree</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="219403715%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2067066517%2FProperties%2F769193423" anchor-label="tsvReadSize" id="-2067066517%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="tsv-read-size.html"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2067066517%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="424067495%2FProperties%2F769193423" anchor-label="type" id="424067495%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="type.html"><span><span>type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="424067495%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="type.html">type</a><span class="token operator">: </span><a href="../-benchmark-type/index.html">BenchmarkType</a></div><div class="brief "><p class="paragraph">TODO: seems to only be used by benchmark?</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1827575965%2FProperties%2F769193423" anchor-label="ungappedEValue" id="-1827575965%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-e-value.html"><span>ungapped</span><wbr><span><span>EValue</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1827575965%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1339424005%2FProperties%2F769193423" anchor-label="ungappedEValueShort" id="-1339424005%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-e-value-short.html"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1339424005%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1948781567%2FProperties%2F769193423" anchor-label="ungappedWindow" id="1948781567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="ungapped-window.html"><span>ungapped</span><wbr><span><span>Window</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1948781567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107085235%2FProperties%2F769193423" anchor-label="upGmaDist" id="1107085235%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-dist.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107085235%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../-distribution-type/index.html">DistributionType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1627144227%2FProperties%2F769193423" anchor-label="upGmaEdgeLimit" id="1627144227%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-edge-limit.html"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1627144227%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1784843305%2FProperties%2F769193423" anchor-label="upGmaInput" id="-1784843305%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="up-gma-input.html"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1784843305%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../-input-type/index.html">InputType</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1489255696%2FProperties%2F769193423" anchor-label="useDatasetField" id="-1489255696%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="use-dataset-field.html"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1489255696%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1455182530%2FProperties%2F769193423" anchor-label="useSmithWaterman" id="1455182530%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="use-smith-waterman.html"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1455182530%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="344967484%2FProperties%2F769193423" anchor-label="weightedGVC" id="344967484%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="weighted-g-v-c.html"><span>weighted</span><wbr><span><span>GVC</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="344967484%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html
new file mode 100644
index 00000000..a54e910e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinHTFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-h-t-factor.html">v0.2.0</a><a href="join-h-t-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinHTFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinHTFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr><span><span>HTFactor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-h-t-factor.html">joinHTFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-ht-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html
new file mode 100644
index 00000000..d4e529a5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinSplitKeyLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-key-len.html">v0.2.0</a><a href="join-split-key-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinSplitKeyLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinSplitKeyLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr><span>Split</span><wbr><span>Key</span><wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-key-len.html">joinSplitKeyLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-key-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">17u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html
new file mode 100644
index 00000000..6d208653
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>joinSplitSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/join-split-size.html">v0.2.0</a><a href="join-split-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/joinSplitSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">joinSplitSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>join</span><wbr><span>Split</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="join-split-size.html">joinSplitSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--join-split-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">100000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html
new file mode 100644
index 00000000..2bc770a3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key2</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/key2.html">v0.2.0</a><a href="key2.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/key2/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">key2</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key2</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="key2.html">key2</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--key2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html
new file mode 100644
index 00000000..2b526ed5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>leftMostInterval</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/left-most-interval.html">v0.2.0</a><a href="left-most-interval.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/leftMostInterval/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">leftMostInterval</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>left</span><wbr><span>Most</span><wbr><span><span>Interval</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="left-most-interval.html">leftMostInterval</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--left-most-interval</code></p><p class="paragraph">Default: <code class="lang-kotlin">32</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html
new file mode 100644
index 00000000..5b3e2e13
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>lengthRatioThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/length-ratio-threshold.html">v0.2.0</a><a href="length-ratio-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/lengthRatioThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">lengthRatioThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>length</span><wbr><span>Ratio</span><wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="length-ratio-threshold.html">lengthRatioThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--length-ratio-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html
new file mode 100644
index 00000000..e8eee0df
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>loadBalancing</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/load-balancing.html">v0.2.0</a><a href="load-balancing.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/loadBalancing/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">loadBalancing</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>load</span><wbr><span><span>Balancing</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="load-balancing.html">loadBalancing</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--load-balancing</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html
new file mode 100644
index 00000000..e150c842
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logExtend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-extend.html">v0.2.0</a><a href="log-extend.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logExtend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logExtend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr><span><span>Extend</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-extend.html">logExtend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-extend</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html
new file mode 100644
index 00000000..bc3b5e18
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logQuery</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-query.html">v0.2.0</a><a href="log-query.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logQuery/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logQuery</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr><span><span>Query</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-query.html">logQuery</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-query</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html
new file mode 100644
index 00000000..c948c930
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>logSubject</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/log-subject.html">v0.2.0</a><a href="log-subject.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/logSubject/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">logSubject</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>log</span><wbr><span><span>Subject</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="log-subject.html">logSubject</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--log-subject</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html
new file mode 100644
index 00000000..aa6b7371
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mapAny</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/map-any.html">v0.2.0</a><a href="map-any.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mapAny/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mapAny</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>map</span><wbr><span><span>Any</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="map-any.html">mapAny</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--mapany</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html
new file mode 100644
index 00000000..c3123344
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxCells</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-cells.html">v0.2.0</a><a href="max-cells.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxCells/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxCells</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span><span>Cells</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-cells.html">maxCells</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-cells</code></p><p class="paragraph">Default: <code class="lang-kotlin">10000000u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html
new file mode 100644
index 00000000..8cc6bd4b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxIndirection</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-indirection.html">v0.2.0</a><a href="max-indirection.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxIndirection/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxIndirection</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span><span>Indirection</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-indirection.html">maxIndirection</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-indirection</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html
new file mode 100644
index 00000000..2488a40a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxMotifLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-motif-len.html">v0.2.0</a><a href="max-motif-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxMotifLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxMotifLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span>Motif</span><wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-motif-len.html">maxMotifLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-motif-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">30</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html
new file mode 100644
index 00000000..8424413a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maxSwipeDp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/max-swipe-dp.html">v0.2.0</a><a href="max-swipe-dp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maxSwipeDp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maxSwipeDp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>max</span><wbr><span>Swipe</span><wbr><span><span>Dp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="max-swipe-dp.html">maxSwipeDp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--max-swipe-dp</code></p><p class="paragraph">Default: <code class="lang-kotlin">1000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html
new file mode 100644
index 00000000..2d48f4a5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>maximumSeedFrequency</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/maximum-seed-frequency.html">v0.2.0</a><a href="maximum-seed-frequency.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/maximumSeedFrequency/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">maximumSeedFrequency</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>maximum</span><wbr><span>Seed</span><wbr><span><span>Frequency</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="maximum-seed-frequency.html">maximumSeedFrequency</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Maximum seed frequency.</p><p class="paragraph">Flag: <code class="lang-kotlin">--seed-freq</code></p><p class="paragraph">Default = <code class="lang-kotlin">-15.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html
new file mode 100644
index 00000000..af5d1976
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-chunk-size.html">v0.2.0</a><a href="mcl-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-chunk-size.html">mclChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL chunk size per thread.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-chunk-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html
new file mode 100644
index 00000000..0cd78484
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclExpansion</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-expansion.html">v0.2.0</a><a href="mcl-expansion.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclExpansion/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclExpansion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span><span>Expansion</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-expansion.html">mclExpansion</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL expansion coefficient.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-expansion</code></p><p class="paragraph">Default: <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html
new file mode 100644
index 00000000..dcdeb748
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclInflation</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-inflation.html">v0.2.0</a><a href="mcl-inflation.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclInflation/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclInflation</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span><span>Inflation</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-inflation.html">mclInflation</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">MCL inflation coefficient.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-inflation</code></p><p class="paragraph">Default: <code class="lang-kotlin">2.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html
new file mode 100644
index 00000000..93c43628
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclMaxIterations</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-max-iterations.html">v0.2.0</a><a href="mcl-max-iterations.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclMaxIterations/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclMaxIterations</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span>Max</span><wbr><span><span>Iterations</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-max-iterations.html">mclMaxIterations</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">MCL maximum iterations.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-max-iterations</code></p><p class="paragraph">Default: <code class="lang-kotlin">100</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html
new file mode 100644
index 00000000..11b839b1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclNonSymmetric</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-non-symmetric.html">v0.2.0</a><a href="mcl-non-symmetric.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclNonSymmetric/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclNonSymmetric</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span>Non</span><wbr><span><span>Symmetric</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-non-symmetric.html">mclNonSymmetric</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Do not symmetrize the transition matrix before clustering.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-nonsymmetric</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html
new file mode 100644
index 00000000..7cab14b2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclSparsitySwitch</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-sparsity-switch.html">v0.2.0</a><a href="mcl-sparsity-switch.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclSparsitySwitch/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclSparsitySwitch</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span>Sparsity</span><wbr><span><span>Switch</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-sparsity-switch.html">mclSparsitySwitch</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">MCL switch to sparse matrix computation.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-sparsity-switch</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.8</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html
new file mode 100644
index 00000000..8de8747f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>mclStats</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/mcl-stats.html">v0.2.0</a><a href="mcl-stats.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/mclStats/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">mclStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>mcl</span><wbr><span><span>Stats</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="mcl-stats.html">mclStats</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Some stats about the connected components in MCL.</p><p class="paragraph">Flag: <code class="lang-kotlin">--mcl-stats</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html
new file mode 100644
index 00000000..54b11b61
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>memoryIntervals</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/memory-intervals.html">v0.2.0</a><a href="memory-intervals.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/memoryIntervals/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">memoryIntervals</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>memory</span><wbr><span><span>Intervals</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="memory-intervals.html">memoryIntervals</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--memory-intervals</code></p><p class="paragraph">Default: <code class="lang-kotlin">2</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html
new file mode 100644
index 00000000..7fcda0ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minBandOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-band-overlap.html">v0.2.0</a><a href="min-band-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minBandOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minBandOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span>Band</span><wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-band-overlap.html">minBandOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-band-overlap</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html
new file mode 100644
index 00000000..12b2807b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minLenRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-len-ratio.html">v0.2.0</a><a href="min-len-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minLenRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minLenRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span>Len</span><wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-len-ratio.html">minLenRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-len-ratio</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html
new file mode 100644
index 00000000..2e7befdf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minRealignOverhang</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-realign-overhang.html">v0.2.0</a><a href="min-realign-overhang.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minRealignOverhang/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minRealignOverhang</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span>Realign</span><wbr><span><span>Overhang</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-realign-overhang.html">minRealignOverhang</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min-realign-overhang</code></p><p class="paragraph">Default: <code class="lang-kotlin">30</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html
new file mode 100644
index 00000000..d2b47a89
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minTaskTracePts</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/min-task-trace-pts.html">v0.2.0</a><a href="min-task-trace-pts.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minTaskTracePts/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minTaskTracePts</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>min</span><wbr><span>Task</span><wbr><span>Trace</span><wbr><span><span>Pts</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="min-task-trace-pts.html">minTaskTracePts</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--min_task_trace_pts</code></p><p class="paragraph">Default: <code class="lang-kotlin">1024</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html
new file mode 100644
index 00000000..a1148236
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>minimizerWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/minimizer-window.html">v0.2.0</a><a href="minimizer-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/minimizerWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">minimizerWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>minimizer</span><wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="minimizer-window.html">minimizerWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--minimizer-window</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html
new file mode 100644
index 00000000..1c1c9cbb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>motifMaskFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/motif-mask-file.html">v0.2.0</a><a href="motif-mask-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/motifMaskFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">motifMaskFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>motif</span><wbr><span>Mask</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="motif-mask-file.html">motifMaskFile</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--motif-mask-file</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html
new file mode 100644
index 00000000..bb66eeee
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>narrowBandCov</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-cov.html">v0.2.0</a><a href="narrow-band-cov.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/narrowBandCov/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">narrowBandCov</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Cov</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-cov.html">narrowBandCov</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-cov</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html
new file mode 100644
index 00000000..5f0b69b7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>narrowBandFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/narrow-band-factor.html">v0.2.0</a><a href="narrow-band-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/narrowBandFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">narrowBandFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>narrow</span><wbr><span>Band</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="narrow-band-factor.html">narrowBandFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--narrow-band-factor</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html
new file mode 100644
index 00000000..0d37acaa
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>neighborhoodScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighborhood-score.html">v0.2.0</a><a href="neighborhood-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/neighborhoodScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">neighborhoodScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>neighborhood</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighborhood-score.html">neighborhoodScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--neighborhood-score</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html
new file mode 100644
index 00000000..49534e26
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>neighbors</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/neighbors.html">v0.2.0</a><a href="neighbors.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/neighbors/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">neighbors</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>neighbors</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="neighbors.html">neighbors</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--neighbors</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html
new file mode 100644
index 00000000..05b346ef
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noChainingMergeHSPs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-chaining-merge-h-s-ps.html">v0.2.0</a><a href="no-chaining-merge-h-s-ps.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noChainingMergeHSPs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noChainingMergeHSPs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Chaining</span><wbr><span>Merge</span><wbr><span><span>HSPs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-chaining-merge-h-s-ps.html">noChainingMergeHSPs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no_chaining_merge_hsps</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html
new file mode 100644
index 00000000..6b29bff7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noDict</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-dict.html">v0.2.0</a><a href="no-dict.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noDict/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noDict</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Dict</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-dict.html">noDict</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-dict</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html
new file mode 100644
index 00000000..36ca3044
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noForwardFp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-forward-fp.html">v0.2.0</a><a href="no-forward-fp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noForwardFp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noForwardFp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Forward</span><wbr><span><span>Fp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-forward-fp.html">noForwardFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-forward-fp</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html
new file mode 100644
index 00000000..81d21cfa
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noLogFile</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-log-file.html">v0.2.0</a><a href="no-log-file.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noLogFile/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noLogFile</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Log</span><wbr><span><span>File</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-log-file.html">noLogFile</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-logfile</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html
new file mode 100644
index 00000000..f3b5b5c2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReextend</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reextend.html">v0.2.0</a><a href="no-reextend.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noReextend/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noReextend</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Reextend</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reextend.html">noReextend</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-reextend</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html
new file mode 100644
index 00000000..22eb8c9c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noRefMasking</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-ref-masking.html">v0.2.0</a><a href="no-ref-masking.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noRefMasking/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noRefMasking</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Ref</span><wbr><span><span>Masking</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-ref-masking.html">noRefMasking</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-ref-masking</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html
new file mode 100644
index 00000000..3c2ce2ae
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noReorder</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-reorder.html">v0.2.0</a><a href="no-reorder.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noReorder/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noReorder</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span><span>Reorder</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-reorder.html">noReorder</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-reorder</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html
new file mode 100644
index 00000000..78e4cb37
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>noSwipeRealign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no-swipe-realign.html">v0.2.0</a><a href="no-swipe-realign.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/noSwipeRealign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">noSwipeRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no</span><wbr><span>Swipe</span><wbr><span><span>Realign</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no-swipe-realign.html">noSwipeRealign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no-swipe-realign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html
new file mode 100644
index 00000000..4c5c26c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>no8BitExtension</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/no8-bit-extension.html">v0.2.0</a><a href="no8-bit-extension.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/no8BitExtension/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">no8BitExtension</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>no8Bit</span><wbr><span><span>Extension</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="no8-bit-extension.html">no8BitExtension</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--no_8bit_extension</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html
new file mode 100644
index 00000000..d32fe126
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>oidList</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/oid-list.html">v0.2.0</a><a href="oid-list.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/oidList/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">oidList</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>oid</span><wbr><span><span>List</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="oid-list.html">oidList</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--oid-list</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html
new file mode 100644
index 00000000..aa722f70
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFp</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-fp.html">v0.2.0</a><a href="output-fp.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/outputFp/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">outputFp</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr><span><span>Fp</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-fp.html">outputFp</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--output-fp</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html
new file mode 100644
index 00000000..abe6ba25
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputHits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/output-hits.html">v0.2.0</a><a href="output-hits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/outputHits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">outputHits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr><span><span>Hits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-hits.html">outputHits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--output-hits</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html
new file mode 100644
index 00000000..95959f3a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pAlign</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-align.html">v0.2.0</a><a href="p-align.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pAlign/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pAlign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>p</span><wbr><span><span>Align</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-align.html">pAlign</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--palign</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html
new file mode 100644
index 00000000..c0b5bd3d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pBest</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/p-best.html">v0.2.0</a><a href="p-best.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pBest/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pBest</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>p</span><wbr><span><span>Best</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="p-best.html">pBest</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--p_best</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.05</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html
new file mode 100644
index 00000000..ae4ab052
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pathCutoff</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/path-cutoff.html">v0.2.0</a><a href="path-cutoff.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pathCutoff/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pathCutoff</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>path</span><wbr><span><span>Cutoff</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="path-cutoff.html">pathCutoff</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--path-cutoff</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.92</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html
new file mode 100644
index 00000000..25f3d9cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>pipelineShort</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/pipeline-short.html">v0.2.0</a><a href="pipeline-short.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/pipelineShort/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">pipelineShort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>pipeline</span><wbr><span><span>Short</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="pipeline-short.html">pipelineShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--pipeline-short</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html
new file mode 100644
index 00000000..1492093e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>prefixScan</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/prefix-scan.html">v0.2.0</a><a href="prefix-scan.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/prefixScan/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">prefixScan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>prefix</span><wbr><span><span>Scan</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="prefix-scan.html">prefixScan</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--prefix-scan</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html
new file mode 100644
index 00000000..0112e124
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryCount</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-count.html">v0.2.0</a><a href="query-count.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryCount/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryCount</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span><span>Count</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-count.html">queryCount</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-count</code></p><p class="paragraph">Default: <code class="lang-kotlin">1</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html
new file mode 100644
index 00000000..76cc776f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryMatchDistanceThreshold</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-match-distance-threshold.html">v0.2.0</a><a href="query-match-distance-threshold.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryMatchDistanceThreshold/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryMatchDistanceThreshold</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span>Match</span><wbr><span>Distance</span><wbr><span><span>Threshold</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-match-distance-threshold.html">queryMatchDistanceThreshold</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-match-distance-threshold</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html
new file mode 100644
index 00000000..3cf0f9c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>queryMemory</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/query-memory.html">v0.2.0</a><a href="query-memory.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/queryMemory/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">queryMemory</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>query</span><wbr><span><span>Memory</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="query-memory.html">queryMemory</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--query-memory</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html
new file mode 100644
index 00000000..3238e326
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>radixBits</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-bits.html">v0.2.0</a><a href="radix-bits.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/radixBits/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">radixBits</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>radix</span><wbr><span><span>Bits</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-bits.html">radixBits</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--radix-bits</code></p><p class="paragraph">Default: <code class="lang-kotlin">8u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html
new file mode 100644
index 00000000..76464ded
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>radixClusterBuffered</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/radix-cluster-buffered.html">v0.2.0</a><a href="radix-cluster-buffered.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/radixClusterBuffered/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">radixClusterBuffered</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>radix</span><wbr><span>Cluster</span><wbr><span><span>Buffered</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="radix-cluster-buffered.html">radixClusterBuffered</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--radix-cluster-buffered</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html
new file mode 100644
index 00000000..a9ec0378
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rank-factor.html">v0.2.0</a><a href="rank-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>rank</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rank-factor.html">rankFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--rank-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html
new file mode 100644
index 00000000..68c81bee
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankingCutoffBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-cutoff-bit-score.html">v0.2.0</a><a href="ranking-cutoff-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankingCutoffBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankingCutoffBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ranking</span><wbr><span>Cutoff</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-cutoff-bit-score.html">rankingCutoffBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ranking-cutoff-bitscore</code></p><p class="paragraph">Default: <code class="lang-kotlin">25.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html
new file mode 100644
index 00000000..62dbbd20
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rankingScoreDropFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ranking-score-drop-factor.html">v0.2.0</a><a href="ranking-score-drop-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rankingScoreDropFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rankingScoreDropFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ranking</span><wbr><span>Score</span><wbr><span>Drop</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ranking-score-drop-factor.html">rankingScoreDropFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-drop-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.95</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html
new file mode 100644
index 00000000..fbb0a134
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>raw</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/raw.html">v0.2.0</a><a href="raw.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/raw/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">raw</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>raw</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="raw.html">raw</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--raw</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html
new file mode 100644
index 00000000..992f5199
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignMax</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-max.html">v0.2.0</a><a href="reassign-max.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignMax/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignMax</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr><span><span>Max</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-max.html">reassignMax</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-max</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html
new file mode 100644
index 00000000..1120d349
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignOverlap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-overlap.html">v0.2.0</a><a href="reassign-overlap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignOverlap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignOverlap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr><span><span>Overlap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-overlap.html">reassignOverlap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-overlap</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.3</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html
new file mode 100644
index 00000000..425774f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reassignRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reassign-ratio.html">v0.2.0</a><a href="reassign-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reassignRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reassignRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>reassign</span><wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reassign-ratio.html">reassignRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reassign-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html
new file mode 100644
index 00000000..7ad6ba7f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>relaxedEValueFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/relaxed-e-value-factor.html">v0.2.0</a><a href="relaxed-e-value-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/relaxedEValueFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">relaxedEValueFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>relaxed</span><wbr><span>EValue</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="relaxed-e-value-factor.html">relaxedEValueFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--relaxed-evalue-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html
new file mode 100644
index 00000000..4b7fa4c4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>resume</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/resume.html">v0.2.0</a><a href="resume.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/resume/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">resume</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>resume</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="resume.html">resume</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div><p class="paragraph">TODO: this flag appears to be unused.</p><p class="paragraph">Flag: <code class="lang-kotlin">--resume</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html
new file mode 100644
index 00000000..200317ff
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>reverse</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/reverse.html">v0.2.0</a><a href="reverse.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/reverse/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">reverse</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>reverse</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="reverse.html">reverse</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--reverse</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html
new file mode 100644
index 00000000..0781676b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>rho</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/rho.html">v0.2.0</a><a href="rho.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/rho/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">rho</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>rho</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="rho.html">rho</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--rho</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.99</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html
new file mode 100644
index 00000000..565f5da3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>scoreEstimateFactor</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-estimate-factor.html">v0.2.0</a><a href="score-estimate-factor.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/scoreEstimateFactor/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">scoreEstimateFactor</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>score</span><wbr><span>Estimate</span><wbr><span><span>Factor</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-estimate-factor.html">scoreEstimateFactor</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-estimate-factor</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html
new file mode 100644
index 00000000..c1b002be
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>scoreRatio</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/score-ratio.html">v0.2.0</a><a href="score-ratio.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/scoreRatio/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">scoreRatio</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>score</span><wbr><span><span>Ratio</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="score-ratio.html">scoreRatio</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--score-ratio</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html
new file mode 100644
index 00000000..bb67704b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedHitDensity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-hit-density.html">v0.2.0</a><a href="seed-hit-density.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/seedHitDensity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">seedHitDensity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr><span>Hit</span><wbr><span><span>Density</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-hit-density.html">seedHitDensity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--seed-hit-density</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html
new file mode 100644
index 00000000..40dec83b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>seedWeight</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/seed-weight.html">v0.2.0</a><a href="seed-weight.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/seedWeight/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">seedWeight</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>seed</span><wbr><span><span>Weight</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="seed-weight.html">seedWeight</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--seed-weight</code> | <code class="lang-kotlin">-w</code></p><p class="paragraph">Default: <code class="lang-kotlin">7u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html
new file mode 100644
index 00000000..17ef97a0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>self</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/self.html">v0.2.0</a><a href="self.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/self/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">self</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>self</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="self.html">self</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--self</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html
new file mode 100644
index 00000000..44b23ef4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortQueryMaxLen</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-max-len.html">v0.2.0</a><a href="short-query-max-len.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortQueryMaxLen/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortQueryMaxLen</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr><span>Query</span><wbr><span>Max</span><wbr><span><span>Len</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-max-len.html">shortQueryMaxLen</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-max-len</code></p><p class="paragraph">Default: <code class="lang-kotlin">60</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html
new file mode 100644
index 00000000..b73e03a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortQueryUngappedBitScore</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-query-ungapped-bit-score.html">v0.2.0</a><a href="short-query-ungapped-bit-score.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortQueryUngappedBitScore/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortQueryUngappedBitScore</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr><span>Query</span><wbr><span>Ungapped</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-query-ungapped-bit-score.html">shortQueryUngappedBitScore</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-query-ungapped-bitscore</code></p><p class="paragraph">Default: <code class="lang-kotlin">25.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html
new file mode 100644
index 00000000..22c33707
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>shortSeqIDs</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/short-seq-i-ds.html">v0.2.0</a><a href="short-seq-i-ds.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/shortSeqIDs/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">shortSeqIDs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>short</span><wbr><span>Seq</span><wbr><span><span>IDs</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="short-seq-i-ds.html">shortSeqIDs</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--short-seqids</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html
new file mode 100644
index 00000000..b01cf1be
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>simpleFreq</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/simple-freq.html">v0.2.0</a><a href="simple-freq.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/simpleFreq/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">simpleFreq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>simple</span><wbr><span><span>Freq</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="simple-freq.html">simpleFreq</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--simple-freq</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html
new file mode 100644
index 00000000..bf7ca9cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sketchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sketch-size.html">v0.2.0</a><a href="sketch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/sketchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">sketchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sketch</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sketch-size.html">sketchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sketch-size</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html
new file mode 100644
index 00000000..23367d80
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>sortJoin</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/sort-join.html">v0.2.0</a><a href="sort-join.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/sortJoin/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">sortJoin</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>sort</span><wbr><span><span>Join</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="sort-join.html">sortJoin</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sort-join</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html
new file mode 100644
index 00000000..913b04b8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>spacePenalty</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/space-penalty.html">v0.2.0</a><a href="space-penalty.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/spacePenalty/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">spacePenalty</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>space</span><wbr><span><span>Penalty</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="space-penalty.html">spacePenalty</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--space-penalty</code></p><p class="paragraph">Default: <code class="lang-kotlin">0.5</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html
new file mode 100644
index 00000000..cd446513
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>storeQueryQuality</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/store-query-quality.html">v0.2.0</a><a href="store-query-quality.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/storeQueryQuality/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">storeQueryQuality</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>store</span><wbr><span>Query</span><wbr><span><span>Quality</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="store-query-quality.html">storeQueryQuality</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--store-query-quality</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html
new file mode 100644
index 00000000..b992c7b0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>strictGVC</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/strict-g-v-c.html">v0.2.0</a><a href="strict-g-v-c.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/strictGVC/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">strictGVC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>strict</span><wbr><span><span>GVC</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="strict-g-v-c.html">strictGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--strict-gvc</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html
new file mode 100644
index 00000000..f8ed17a2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>superblock</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/superblock.html">v0.2.0</a><a href="superblock.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/superblock/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">superblock</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>superblock</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="superblock.html">superblock</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--superblock</code></p><p class="paragraph">Default: <code class="lang-kotlin">128</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html
new file mode 100644
index 00000000..4ffea2b0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipeChunkSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-chunk-size.html">v0.2.0</a><a href="swipe-chunk-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/swipeChunkSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">swipeChunkSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>swipe</span><wbr><span>Chunk</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-chunk-size.html">swipeChunkSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-chunk-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">256u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html
new file mode 100644
index 00000000..5d36fe4a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>swipeTaskSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/swipe-task-size.html">v0.2.0</a><a href="swipe-task-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/swipeTaskSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">swipeTaskSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>swipe</span><wbr><span>Task</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="swipe-task-size.html">swipeTaskSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--swipe-task-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">100000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html
new file mode 100644
index 00000000..3a47cf98
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanMaxRepeatOffset</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-max-repeat-offset.html">v0.2.0</a><a href="tantan-max-repeat-offset.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tantanMaxRepeatOffset/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tantanMaxRepeatOffset</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr><span>Max</span><wbr><span>Repeat</span><wbr><span><span>Offset</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-max-repeat-offset.html">tantanMaxRepeatOffset</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Maximum tandem repeat period to consider (50)</p><p class="paragraph">Flag: <code class="lang-kotlin">--tantan-maxRepeatOffset</code> // TODO: the caps are in the diamond cli source, are flag strings case sensitive?</p><p class="paragraph">Default: <code class="lang-kotlin">15</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html
new file mode 100644
index 00000000..17b7f639
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tantanUngapped</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tantan-ungapped.html">v0.2.0</a><a href="tantan-ungapped.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tantanUngapped/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tantanUngapped</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tantan</span><wbr><span><span>Ungapped</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tantan-ungapped.html">tantanUngapped</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Use tantan masking in ungapped mode</p><p class="paragraph">Flag: <code class="lang-kotlin">--tantan-ungapped</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html
new file mode 100644
index 00000000..0cea257a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetBias</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-bias.html">v0.2.0</a><a href="target-bias.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetBias/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetBias</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr><span><span>Bias</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-bias.html">targetBias</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target-bias</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html
new file mode 100644
index 00000000..653a6200
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetFetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-fetch-size.html">v0.2.0</a><a href="target-fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetFetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetFetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-fetch-size.html">targetFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Number of target sequences to fetch for seed extension.</p><p class="paragraph">Flag: <code class="lang-kotlin">--target-fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">4u</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html
new file mode 100644
index 00000000..f971e9f4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetHardCap</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-hard-cap.html">v0.2.0</a><a href="target-hard-cap.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetHardCap/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetHardCap</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr><span>Hard</span><wbr><span><span>Cap</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-hard-cap.html">targetHardCap</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target_hard_cap</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html
new file mode 100644
index 00000000..a48cf0ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>targetParallelVerbosity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/target-parallel-verbosity.html">v0.2.0</a><a href="target-parallel-verbosity.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/targetParallelVerbosity/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">targetParallelVerbosity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>target</span><wbr><span>Parallel</span><wbr><span><span>Verbosity</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="target-parallel-verbosity.html">targetParallelVerbosity</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--target-parallel-verbosity</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html
new file mode 100644
index 00000000..772894c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tileSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tile-size.html">v0.2.0</a><a href="tile-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tileSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tileSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tile</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tile-size.html">tileSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-int/index.html">UInt</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tile-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">1024</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html
new file mode 100644
index 00000000..f2274e3c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>timeout</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/timeout.html">v0.2.0</a><a href="timeout.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/timeout/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">timeout</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>timeout</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="timeout.html">timeout</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--timeout</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html
new file mode 100644
index 00000000..f5a052ba
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tracePtFetchSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/trace-pt-fetch-size.html">v0.2.0</a><a href="trace-pt-fetch-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tracePtFetchSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tracePtFetchSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>trace</span><wbr><span>Pt</span><wbr><span>Fetch</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="trace-pt-fetch-size.html">tracePtFetchSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--trace-pt-fetch-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">10e9</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html
new file mode 100644
index 00000000..a1d48dbe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>transcriptLenEstimate</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/transcript-len-estimate.html">v0.2.0</a><a href="transcript-len-estimate.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/transcriptLenEstimate/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">transcriptLenEstimate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>transcript</span><wbr><span>Len</span><wbr><span><span>Estimate</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="transcript-len-estimate.html">transcriptLenEstimate</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--transcript-len-estimate</code></p><p class="paragraph">Default: <code class="lang-kotlin">1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html
new file mode 100644
index 00000000..c9c0389b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tree</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tree.html">v0.2.0</a><a href="tree.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tree/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tree</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>tree</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tree.html">tree</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tree</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html
new file mode 100644
index 00000000..55b21c89
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>tsvReadSize</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/tsv-read-size.html">v0.2.0</a><a href="tsv-read-size.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/tsvReadSize/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">tsvReadSize</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>tsv</span><wbr><span>Read</span><wbr><span><span>Size</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="tsv-read-size.html">tsvReadSize</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-long/index.html">Long</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--tsv-read-size</code></p><p class="paragraph">Default: <code class="lang-kotlin">1073741824</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html
new file mode 100644
index 00000000..4185544b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>type</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/type.html">v0.2.0</a><a href="type.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/type/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">type</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>type</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="type.html">type</a><span class="token operator">: </span><a href="../-benchmark-type/index.html">BenchmarkType</a></div><p class="paragraph">TODO: seems to only be used by benchmark?</p><p class="paragraph">Flag: <code class="lang-kotlin">--type</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html
new file mode 100644
index 00000000..2a9c1f8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedEValueShort</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value-short.html">v0.2.0</a><a href="ungapped-e-value-short.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedEValueShort/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedEValueShort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr><span>EValue</span><wbr><span><span>Short</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value-short.html">ungappedEValueShort</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue-short</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html
new file mode 100644
index 00000000..3aa2ed23
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedEValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-e-value.html">v0.2.0</a><a href="ungapped-e-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedEValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedEValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr><span><span>EValue</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-e-value.html">ungappedEValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-double/index.html">Double</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-evalue</code></p><p class="paragraph">Default: <code class="lang-kotlin">-1.0</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html
new file mode 100644
index 00000000..83396fea
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ungappedWindow</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/ungapped-window.html">v0.2.0</a><a href="ungapped-window.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/ungappedWindow/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">ungappedWindow</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>ungapped</span><wbr><span><span>Window</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="ungapped-window.html">ungappedWindow</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--ungapped-window</code></p><p class="paragraph">Default: <code class="lang-kotlin">48</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html
new file mode 100644
index 00000000..aed3ba82
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaDist</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-dist.html">v0.2.0</a><a href="up-gma-dist.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaDist/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaDist</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr><span>Gma</span><wbr><span><span>Dist</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-dist.html">upGmaDist</a><span class="token operator">: </span><a href="../-distribution-type/index.html">DistributionType</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-dist</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html
new file mode 100644
index 00000000..8719bc07
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaEdgeLimit</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-edge-limit.html">v0.2.0</a><a href="up-gma-edge-limit.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaEdgeLimit/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaEdgeLimit</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr><span>Gma</span><wbr><span>Edge</span><wbr><span><span>Limit</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-edge-limit.html">upGmaEdgeLimit</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-long/index.html">ULong</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-edge-limit</code></p><p class="paragraph">Default: <code class="lang-kotlin">10000000</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html
new file mode 100644
index 00000000..430a0e2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>upGmaInput</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/up-gma-input.html">v0.2.0</a><a href="up-gma-input.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/upGmaInput/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">upGmaInput</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>up</span><wbr><span>Gma</span><wbr><span><span>Input</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="up-gma-input.html">upGmaInput</a><span class="token operator">: </span><a href="../-input-type/index.html">InputType</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--upgma-input</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html
new file mode 100644
index 00000000..16bacafd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>useDatasetField</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-dataset-field.html">v0.2.0</a><a href="use-dataset-field.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/useDatasetField/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">useDatasetField</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>use</span><wbr><span>Dataset</span><wbr><span><span>Field</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-dataset-field.html">useDatasetField</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--use-dataset-field</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html
new file mode 100644
index 00000000..1aebf3eb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>useSmithWaterman</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/use-smith-waterman.html">v0.2.0</a><a href="use-smith-waterman.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/useSmithWaterman/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">useSmithWaterman</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>use</span><wbr><span>Smith</span><wbr><span><span>Waterman</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="use-smith-waterman.html">useSmithWaterman</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--sw</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html
new file mode 100644
index 00000000..ea75424f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>weightedGVC</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-hidden-option-container/weighted-g-v-c.html">v0.2.0</a><a href="weighted-g-v-c.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/HiddenOptionContainer/weightedGVC/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">HiddenOptionContainer</a><span class="delimiter">/</span><span class="current">weightedGVC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>weighted</span><wbr><span><span>GVC</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html"><span class="token annotation builtin">DiamondHidden</span></a></div></div><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="weighted-g-v-c.html">weightedGVC</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Flag: <code class="lang-kotlin">--weighted-gvc</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html
new file mode 100644
index 00000000..4343b4cb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Binary</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-binary/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Binary///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Binary</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Binary</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Binary</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html
new file mode 100644
index 00000000..99344b2e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html
new file mode 100644
index 00000000..e40e7b28
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html
new file mode 100644
index 00000000..331a2683
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1920219818%2FFunctions%2F769193423" anchor-label="fromJson" id="1920219818%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1920219818%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-293279042%2FFunctions%2F769193423" anchor-label="fromString" id="-293279042%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-293279042%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">InputType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html
new file mode 100644
index 00000000..b1fa260b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Other</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/-other/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType.Other///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">InputType</a><span class="delimiter">/</span><span class="current">Other</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Other</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Other</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html
new file mode 100644
index 00000000..51b566e4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html
new file mode 100644
index 00000000..6da136ed
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html
new file mode 100644
index 00000000..0c2d603b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>InputType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">InputType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Input</span><wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">InputType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="330721838%2FClasslikes%2F769193423" anchor-label="Binary" id="330721838%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-binary/index.html">Binary</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="330721838%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-binary/index.html">Binary</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1569459925%2FClasslikes%2F769193423" anchor-label="Other" id="-1569459925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-other/index.html">Other</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1569459925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-other/index.html">Other</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="836929854%2FClasslikes%2F769193423" anchor-label="Companion" id="836929854%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="836929854%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-956517070%2FProperties%2F769193423" anchor-label="cliValue" id="-956517070%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-956517070%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1968555033%2FProperties%2F769193423" anchor-label="entries" id="-1968555033%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1968555033%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1634869079%2FFunctions%2F769193423" anchor-label="toString" id="1634869079%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1634869079%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2080739051%2FFunctions%2F769193423" anchor-label="valueOf" id="-2080739051%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2080739051%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">InputType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-416508191%2FFunctions%2F769193423" anchor-label="values" id="-416508191%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-416508191%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html
new file mode 100644
index 00000000..64b5990c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html
new file mode 100644
index 00000000..583b6e3e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">InputType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html
new file mode 100644
index 00000000..2ee9d059
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/InputType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">InputType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">InputType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html
new file mode 100644
index 00000000..89c2ad5c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastSeg</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-blast-seg/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.BlastSeg///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">BlastSeg</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>Seg</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastSeg</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html
new file mode 100644
index 00000000..7864abdc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-int.html">v0.2.0</a><a href="from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html
new file mode 100644
index 00000000..64b7d8fe
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html
new file mode 100644
index 00000000..516242df
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html
new file mode 100644
index 00000000..4740b436
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="644624285%2FFunctions%2F769193423" anchor-label="fromInt" id="644624285%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="644624285%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1392288437%2FFunctions%2F769193423" anchor-label="fromJson" id="1392288437%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1392288437%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="963969993%2FFunctions%2F769193423" anchor-label="fromString" id="963969993%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="963969993%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MaskingMode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html
new file mode 100644
index 00000000..8f41d4ab
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-none/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html
new file mode 100644
index 00000000..6231da2d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Tantan</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/-tantan/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode.Tantan///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">Tantan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Tantan</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Tantan</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html
new file mode 100644
index 00000000..66168282
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>alt</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/alt.html">v0.2.0</a><a href="alt.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/alt/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">alt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>alt</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html
new file mode 100644
index 00000000..e6cc0875
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html
new file mode 100644
index 00000000..839e4078
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html
new file mode 100644
index 00000000..15cfcc44
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html
@@ -0,0 +1,300 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MaskingMode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">MaskingMode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Masking</span><wbr><span><span>Mode</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">MaskingMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1283209360%2FClasslikes%2F769193423" anchor-label="None" id="-1283209360%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1283209360%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1745385880%2FClasslikes%2F769193423" anchor-label="Tantan" id="1745385880%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-tantan/index.html">Tantan</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1745385880%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-tantan/index.html">Tantan</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1472208203%2FClasslikes%2F769193423" anchor-label="BlastSeg" id="-1472208203%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-seg/index.html">BlastSeg</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1472208203%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-seg/index.html">BlastSeg</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-537046199%2FClasslikes%2F769193423" anchor-label="Companion" id="-537046199%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-537046199%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1239572537%2FProperties%2F769193423" anchor-label="alt" id="1239572537%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="alt.html"><span><span>alt</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1239572537%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="alt.html">alt</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a><span class="token operator">?</span><span class="token operator"> = </span>null</div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="246087111%2FProperties%2F769193423" anchor-label="cliValue" id="246087111%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="246087111%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2088111282%2FProperties%2F769193423" anchor-label="entries" id="2088111282%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2088111282%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="539143217%2FProperties%2F769193423" anchor-label="value" id="539143217%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="539143217%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1457494036%2FFunctions%2F769193423" anchor-label="toString" id="-1457494036%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1457494036%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1656717866%2FFunctions%2F769193423" anchor-label="valueOf" id="1656717866%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1656717866%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MaskingMode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1099825334%2FFunctions%2F769193423" anchor-label="values" id="1099825334%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1099825334%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html
new file mode 100644
index 00000000..fa162982
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html
new file mode 100644
index 00000000..e41a3085
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MaskingMode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html
new file mode 100644
index 00000000..df0fed78
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html">v0.2.0</a><a href="value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html
new file mode 100644
index 00000000..1a7502d8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MaskingMode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MaskingMode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MaskingMode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html
new file mode 100644
index 00000000..4234ffb4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-int.html">v0.2.0</a><a href="from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..0b9b7c35
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..a993f8c4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html
new file mode 100644
index 00000000..b0bb5acb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-699511026%2FFunctions%2F769193423" anchor-label="fromInt" id="-699511026%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-699511026%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-161552794%2FFunctions%2F769193423" anchor-label="fromJson" id="-161552794%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-161552794%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="849611386%2FFunctions%2F769193423" anchor-label="fromString" id="849611386%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="849611386%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">MotifMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html
new file mode 100644
index 00000000..e17c8c52
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Motif</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-motif/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Motif</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Motif</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Motif</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html
new file mode 100644
index 00000000..8d4ccbf8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/-none/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html
new file mode 100644
index 00000000..d6a33b75
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html
new file mode 100644
index 00000000..9781aa94
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html
new file mode 100644
index 00000000..38c1b92c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html
@@ -0,0 +1,270 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MotifMaskingAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">MotifMaskingAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Motif</span><wbr><span>Masking</span><wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">MotifMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-61373151%2FClasslikes%2F769193423" anchor-label="None" id="-61373151%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-61373151%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1624705358%2FClasslikes%2F769193423" anchor-label="Motif" id="1624705358%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif/index.html">Motif</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1624705358%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-motif/index.html">Motif</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="1129454842%2FClasslikes%2F769193423" anchor-label="Companion" id="1129454842%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1129454842%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1269676534%2FProperties%2F769193423" anchor-label="cliValue" id="1269676534%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1269676534%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1428393635%2FProperties%2F769193423" anchor-label="entries" id="1428393635%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1428393635%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243665310%2FProperties%2F769193423" anchor-label="value" id="-243665310%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243665310%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-433904613%2FFunctions%2F769193423" anchor-label="toString" id="-433904613%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-433904613%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="798388185%2FFunctions%2F769193423" anchor-label="valueOf" id="798388185%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="798388185%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MotifMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1692402523%2FFunctions%2F769193423" anchor-label="values" id="-1692402523%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1692402523%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html
new file mode 100644
index 00000000..a3152c99
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html
new file mode 100644
index 00000000..429180a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">MotifMaskingAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html
new file mode 100644
index 00000000..a4706bdc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html">v0.2.0</a><a href="value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html
new file mode 100644
index 00000000..9dcbe338
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/MotifMaskingAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">MotifMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html
new file mode 100644
index 00000000..0b73070d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>includeLineage</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/include-lineage.html">v0.2.0</a><a href="include-lineage.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer/includeLineage/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptionContainer</a><span class="delimiter">/</span><span class="current">includeLineage</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>include</span><wbr><span><span>Lineage</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><p class="paragraph">Include lineage in the taxonomic classification format.</p><p class="paragraph">Flag = <code class="lang-kotlin">--include-lineage</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html
new file mode 100644
index 00000000..1c260239
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>OutputFormatOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">OutputFormatOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Output</span><wbr><span>Format</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">OutputFormatOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-cluster-realign/index.html">ClusterRealign</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-950127088%2FProperties%2F769193423" anchor-label="includeLineage" id="-950127088%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="include-lineage.html"><span>include</span><wbr><span><span>Lineage</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-950127088%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="include-lineage.html">includeLineage</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-boolean/index.html">Boolean</a></div><div class="brief "><p class="paragraph">Include lineage in the taxonomic classification format.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="507494299%2FProperties%2F769193423" anchor-label="outputFormat" id="507494299%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="output-format.html"><span>output</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="507494299%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><div class="brief "><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html
new file mode 100644
index 00000000..9945a1d1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>outputFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-output-format-option-container/output-format.html">v0.2.0</a><a href="output-format.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/OutputFormatOptionContainer/outputFormat/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">OutputFormatOptionContainer</a><span class="delimiter">/</span><span class="current">outputFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>output</span><wbr><span><span>Format</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="output-format.html">outputFormat</a><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html">OutputFormatOptions</a></div><p class="paragraph">Flag = <code class="lang-kotlin">--outfmt</code> | <code class="lang-kotlin">-f</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html
new file mode 100644
index 00000000..c1da3df7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html
new file mode 100644
index 00000000..30dad62e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html
new file mode 100644
index 00000000..0207a1d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1091380045%2FFunctions%2F769193423" anchor-label="fromJson" id="-1091380045%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1091380045%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1006118969%2FFunctions%2F769193423" anchor-label="fromString" id="-1006118969%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1006118969%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryFileFormat</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html
new file mode 100644
index 00000000..aa7d6ff1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FASTA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.FASTA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">FASTA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>FASTA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FASTA</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html
new file mode 100644
index 00000000..17f7746f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FASTQ</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/-f-a-s-t-q/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat.FASTQ///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">FASTQ</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>FASTQ</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FASTQ</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html
new file mode 100644
index 00000000..bde9d5ac
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html
new file mode 100644
index 00000000..704814c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html
new file mode 100644
index 00000000..91a98079
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryFileFormat</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
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+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">QueryFileFormat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span>File</span><wbr><span><span>Format</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">QueryFileFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-136291337%2FClasslikes%2F769193423" anchor-label="FASTA" id="-136291337%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-f-a-s-t-a/index.html">FASTA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-136291337%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-f-a-s-t-a/index.html">FASTA</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="682631175%2FClasslikes%2F769193423" anchor-label="FASTQ" id="682631175%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-f-a-s-t-q/index.html">FASTQ</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="682631175%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-f-a-s-t-q/index.html">FASTQ</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="953860423%2FClasslikes%2F769193423" anchor-label="Companion" id="953860423%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="953860423%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="294180873%2FProperties%2F769193423" anchor-label="cliValue" id="294180873%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="294180873%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="288547376%2FProperties%2F769193423" anchor-label="entries" id="288547376%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="288547376%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1409400274%2FFunctions%2F769193423" anchor-label="toString" id="-1409400274%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1409400274%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="325978476%2FFunctions%2F769193423" anchor-label="valueOf" id="325978476%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="325978476%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryFileFormat</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-482245768%2FFunctions%2F769193423" anchor-label="values" id="-482245768%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-482245768%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html
new file mode 100644
index 00000000..71afb812
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html
new file mode 100644
index 00000000..c4d3b6bb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryFileFormat</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html
new file mode 100644
index 00000000..06b5c844
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryFileFormat/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryFileFormat</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryFileFormat</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html
new file mode 100644
index 00000000..c2618dcd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Both</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-both/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Both///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Both</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Both</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Both</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html
new file mode 100644
index 00000000..30ec3125
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html
new file mode 100644
index 00000000..5184a7d6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html
new file mode 100644
index 00000000..f3a4b587
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-163878944%2FFunctions%2F769193423" anchor-label="fromJson" id="-163878944%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-163878944%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1590109708%2FFunctions%2F769193423" anchor-label="fromString" id="-1590109708%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1590109708%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">QueryStrand</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html
new file mode 100644
index 00000000..68d6f298
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Minus</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-minus/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Minus///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Minus</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Minus</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Minus</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html
new file mode 100644
index 00000000..a61c8db1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Plus</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/-plus/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand.Plus///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">Plus</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Plus</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Plus</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html
new file mode 100644
index 00000000..91f5c8c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html
new file mode 100644
index 00000000..73df915a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html
new file mode 100644
index 00000000..457a1442
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html
@@ -0,0 +1,270 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>QueryStrand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">QueryStrand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Query</span><wbr><span><span>Strand</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">QueryStrand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="1904403748%2FClasslikes%2F769193423" anchor-label="Both" id="1904403748%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-both/index.html">Both</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1904403748%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-both/index.html">Both</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1072014979%2FClasslikes%2F769193423" anchor-label="Plus" id="-1072014979%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-plus/index.html">Plus</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1072014979%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-plus/index.html">Plus</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-480432107%2FClasslikes%2F769193423" anchor-label="Minus" id="-480432107%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-minus/index.html">Minus</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-480432107%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-minus/index.html">Minus</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1893123468%2FClasslikes%2F769193423" anchor-label="Companion" id="-1893123468%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1893123468%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1310721340%2FProperties%2F769193423" anchor-label="cliValue" id="1310721340%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1310721340%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1429717661%2FProperties%2F769193423" anchor-label="entries" id="1429717661%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1429717661%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-392859807%2FFunctions%2F769193423" anchor-label="toString" id="-392859807%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-392859807%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1312554465%2FFunctions%2F769193423" anchor-label="valueOf" id="-1312554465%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1312554465%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryStrand</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="2048418155%2FFunctions%2F769193423" anchor-label="values" id="2048418155%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="2048418155%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html
new file mode 100644
index 00000000..bd6ce686
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html
new file mode 100644
index 00000000..3161e9a7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
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+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">QueryStrand</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html
new file mode 100644
index 00000000..3684b0dc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/QueryStrand/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">QueryStrand</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">QueryStrand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html
new file mode 100644
index 00000000..2655e4d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM45</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m45/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM45///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM45</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM45</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM45</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html
new file mode 100644
index 00000000..d0404d21
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM50</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m50/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM50///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM50</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM50</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM50</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html
new file mode 100644
index 00000000..e6c2e6f9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM62</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m62/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM62///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM62</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM62</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM62</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html
new file mode 100644
index 00000000..729dfb0b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM80</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m80/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM80///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM80</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM80</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM80</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html
new file mode 100644
index 00000000..27760b0c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BLOSUM90</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-b-l-o-s-u-m90/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.BLOSUM90///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">BLOSUM90</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>BLOSUM90</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BLOSUM90</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html
new file mode 100644
index 00000000..8266533c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html
new file mode 100644
index 00000000..9454ac23
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html
new file mode 100644
index 00000000..5b41a29f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-897104965%2FFunctions%2F769193423" anchor-label="fromJson" id="-897104965%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-897104965%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1265030863%2FFunctions%2F769193423" anchor-label="fromString" id="1265030863%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1265030863%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">ScoreMatrix</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html
new file mode 100644
index 00000000..f7eeb9f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM250</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m250/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM250///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM250</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM250</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM250</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html
new file mode 100644
index 00000000..5feab121
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM30</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m30/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM30///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM30</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM30</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM30</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html
new file mode 100644
index 00000000..82cccae4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PAM70</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/-p-a-m70/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix.PAM70///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">PAM70</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>PAM70</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PAM70</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html
new file mode 100644
index 00000000..8726fc26
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html
new file mode 100644
index 00000000..e5bdcda5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html
new file mode 100644
index 00000000..37ff488f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html
@@ -0,0 +1,345 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ScoreMatrix</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ScoreMatrix</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Score</span><wbr><span><span>Matrix</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">ScoreMatrix</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="822794149%2FClasslikes%2F769193423" anchor-label="BLOSUM45" id="822794149%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m45/index.html">BLOSUM45</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="822794149%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m45/index.html">BLOSUM45</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1257702752%2FClasslikes%2F769193423" anchor-label="BLOSUM62" id="-1257702752%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m62/index.html">BLOSUM62</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1257702752%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m62/index.html">BLOSUM62</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-530811329%2FClasslikes%2F769193423" anchor-label="BLOSUM50" id="-530811329%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m50/index.html">BLOSUM50</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-530811329%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m50/index.html">BLOSUM50</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1407968804%2FClasslikes%2F769193423" anchor-label="BLOSUM80" id="-1407968804%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m80/index.html">BLOSUM80</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1407968804%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m80/index.html">BLOSUM80</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1700354629%2FClasslikes%2F769193423" anchor-label="BLOSUM90" id="-1700354629%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-b-l-o-s-u-m90/index.html">BLOSUM90</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1700354629%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-b-l-o-s-u-m90/index.html">BLOSUM90</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1940843823%2FClasslikes%2F769193423" anchor-label="PAM250" id="1940843823%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m250/index.html">PAM250</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1940843823%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m250/index.html">PAM250</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-934075549%2FClasslikes%2F769193423" anchor-label="PAM30" id="-934075549%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m30/index.html">PAM30</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-934075549%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m30/index.html">PAM30</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2103618849%2FClasslikes%2F769193423" anchor-label="PAM70" id="-2103618849%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-p-a-m70/index.html">PAM70</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2103618849%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-p-a-m70/index.html">PAM70</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="608983119%2FClasslikes%2F769193423" anchor-label="Companion" id="608983119%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="608983119%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1518059519%2FProperties%2F769193423" anchor-label="cliValue" id="-1518059519%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1518059519%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-324101320%2FProperties%2F769193423" anchor-label="entries" id="-324101320%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-324101320%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1073326630%2FFunctions%2F769193423" anchor-label="toString" id="1073326630%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1073326630%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1299529060%2FFunctions%2F769193423" anchor-label="valueOf" id="1299529060%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1299529060%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ScoreMatrix</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="744917360%2FFunctions%2F769193423" anchor-label="values" id="744917360%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="744917360%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html
new file mode 100644
index 00000000..d8bbefd1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html
new file mode 100644
index 00000000..cc0f3ecd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">ScoreMatrix</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html
new file mode 100644
index 00000000..f028bc59
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ScoreMatrix/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ScoreMatrix</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">ScoreMatrix</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html
new file mode 100644
index 00000000..3c5daac6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html
new file mode 100644
index 00000000..a52c2722
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html
new file mode 100644
index 00000000..0f07902b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1765276303%2FFunctions%2F769193423" anchor-label="fromJson" id="1765276303%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1765276303%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1689400925%2FFunctions%2F769193423" anchor-label="fromString" id="-1689400925%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1689400925%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">Sensitivity</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html
new file mode 100644
index 00000000..32b8ac48
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Default</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-default/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Default///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Default</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Default</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Default</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html
new file mode 100644
index 00000000..33207855
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Fast</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-fast/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Fast///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Fast</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Fast</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Fast</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html
new file mode 100644
index 00000000..d7d461b4
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Faster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-faster/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Faster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Faster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Faster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Faster</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html
new file mode 100644
index 00000000..e34f3453
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MidSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-mid-sensitive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.MidSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">MidSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Mid</span><wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MidSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html
new file mode 100644
index 00000000..28da2c34
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MoreSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-more-sensitive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.MoreSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">MoreSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>More</span><wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MoreSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html
new file mode 100644
index 00000000..c79d40b3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-sensitive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Sensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Sensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Sensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html
new file mode 100644
index 00000000..b58ce056
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Shapes30x10</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-shapes30x10/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.Shapes30x10///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">Shapes30x10</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Shapes30x10</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Shapes30x10</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html
new file mode 100644
index 00000000..948aa703
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UltraSensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-ultra-sensitive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.UltraSensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">UltraSensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ultra</span><wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">UltraSensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html
new file mode 100644
index 00000000..2a132977
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>VerySensitive</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/-very-sensitive/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity.VerySensitive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">VerySensitive</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Very</span><wbr><span><span>Sensitive</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">VerySensitive</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html
new file mode 100644
index 00000000..11999876
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html
new file mode 100644
index 00000000..b1963116
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html
new file mode 100644
index 00000000..4da1affd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html
@@ -0,0 +1,360 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sensitivity</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">Sensitivity</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sensitivity</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">Sensitivity</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-1750099237%2FClasslikes%2F769193423" anchor-label="Faster" id="-1750099237%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-faster/index.html">Faster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1750099237%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-faster/index.html">Faster</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-143121042%2FClasslikes%2F769193423" anchor-label="Fast" id="-143121042%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fast/index.html">Fast</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-143121042%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-fast/index.html">Fast</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-532299049%2FClasslikes%2F769193423" anchor-label="Default" id="-532299049%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-default/index.html">Default</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-532299049%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-default/index.html">Default</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1991756608%2FClasslikes%2F769193423" anchor-label="MidSensitive" id="-1991756608%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mid-sensitive/index.html">MidSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1991756608%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mid-sensitive/index.html">MidSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-927443778%2FClasslikes%2F769193423" anchor-label="Shapes30x10" id="-927443778%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-shapes30x10/index.html">Shapes30x10</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-927443778%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-shapes30x10/index.html">Shapes30x10</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="20435948%2FClasslikes%2F769193423" anchor-label="Sensitive" id="20435948%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sensitive/index.html">Sensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="20435948%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-sensitive/index.html">Sensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="394597847%2FClasslikes%2F769193423" anchor-label="MoreSensitive" id="394597847%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-more-sensitive/index.html">MoreSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="394597847%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-more-sensitive/index.html">MoreSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1382447914%2FClasslikes%2F769193423" anchor-label="VerySensitive" id="-1382447914%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-very-sensitive/index.html">VerySensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1382447914%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-very-sensitive/index.html">VerySensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="492618588%2FClasslikes%2F769193423" anchor-label="UltraSensitive" id="492618588%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ultra-sensitive/index.html">UltraSensitive</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="492618588%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ultra-sensitive/index.html">UltraSensitive</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="828213027%2FClasslikes%2F769193423" anchor-label="Companion" id="828213027%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="828213027%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-2065176915%2FProperties%2F769193423" anchor-label="cliValue" id="-2065176915%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2065176915%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-64655604%2FProperties%2F769193423" anchor-label="entries" id="-64655604%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-64655604%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="526209234%2FFunctions%2F769193423" anchor-label="toString" id="526209234%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="526209234%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1721254416%2FFunctions%2F769193423" anchor-label="valueOf" id="1721254416%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1721254416%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Sensitivity</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="60549916%2FFunctions%2F769193423" anchor-label="values" id="60549916%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="60549916%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html
new file mode 100644
index 00000000..3096aae3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html
new file mode 100644
index 00000000..f532b992
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">Sensitivity</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html
new file mode 100644
index 00000000..a0b16e8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/Sensitivity/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">Sensitivity</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">Sensitivity</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html
new file mode 100644
index 00000000..491dc265
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AminoAcid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.AminoAcid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">AminoAcid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Amino</span><wbr><span><span>Acid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AminoAcid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html
new file mode 100644
index 00000000..44540205
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html
new file mode 100644
index 00000000..5c008ae3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html
new file mode 100644
index 00000000..bd518d3c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-953989739%2FFunctions%2F769193423" anchor-label="fromJson" id="-953989739%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-953989739%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-629258583%2FFunctions%2F769193423" anchor-label="fromString" id="-629258583%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-629258583%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SequenceType</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html
new file mode 100644
index 00000000..0b84087a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html
@@ -0,0 +1,157 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Nucleotide</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-nucleotide/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType.Nucleotide///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SequenceType</a><span class="delimiter">/</span><span class="current">Nucleotide</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Nucleotide</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Nucleotide</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html
new file mode 100644
index 00000000..a84919b7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html
new file mode 100644
index 00000000..fd999f76
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html
new file mode 100644
index 00000000..efdc7eca
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html
@@ -0,0 +1,255 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SequenceType</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">SequenceType</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Sequence</span><wbr><span><span>Type</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">SequenceType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="252422507%2FClasslikes%2F769193423" anchor-label="AminoAcid" id="252422507%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-amino-acid/index.html">AminoAcid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="252422507%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-amino-acid/index.html">AminoAcid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="547174376%2FClasslikes%2F769193423" anchor-label="Nucleotide" id="547174376%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-nucleotide/index.html">Nucleotide</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="547174376%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-nucleotide/index.html">Nucleotide</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="600389161%2FClasslikes%2F769193423" anchor-label="Companion" id="600389161%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="600389161%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1114062567%2FProperties%2F769193423" anchor-label="cliValue" id="1114062567%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1114062567%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1839015826%2FProperties%2F769193423" anchor-label="entries" id="1839015826%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1839015826%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-589518580%2FFunctions%2F769193423" anchor-label="toString" id="-589518580%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-589518580%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-243068086%2FFunctions%2F769193423" anchor-label="valueOf" id="-243068086%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-243068086%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SequenceType</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1817703978%2FFunctions%2F769193423" anchor-label="values" id="-1817703978%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1817703978%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html
new file mode 100644
index 00000000..2f2a48e5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html
new file mode 100644
index 00000000..6c216e3d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SequenceType</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html
new file mode 100644
index 00000000..d0dbdcaf
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SequenceType/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SequenceType</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SequenceType</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html
new file mode 100644
index 00000000..863ea494
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-int.html">v0.2.0</a><a href="from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html
new file mode 100644
index 00000000..c01a4740
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html
new file mode 100644
index 00000000..f06d9200
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html
new file mode 100644
index 00000000..823a2b33
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="79881525%2FFunctions%2F769193423" anchor-label="fromInt" id="79881525%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="79881525%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-157319603%2FFunctions%2F769193423" anchor-label="fromJson" id="-157319603%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-157319603%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1344067743%2FFunctions%2F769193423" anchor-label="fromString" id="-1344067743%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1344067743%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">SoftMaskingAlgorithm</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html
new file mode 100644
index 00000000..d8c0600a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Motif</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Motif</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Motif</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Motif</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html
new file mode 100644
index 00000000..3ca9edce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>None</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">None</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>None</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">None</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html
new file mode 100644
index 00000000..28180593
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Seg</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-seg/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Seg///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Seg</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Seg</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Seg</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html
new file mode 100644
index 00000000..f8d2a06f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html
@@ -0,0 +1,187 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Tantan</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Tantan///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">Tantan</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Tantan</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Tantan</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html
new file mode 100644
index 00000000..12f11c42
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html
new file mode 100644
index 00000000..8aea240f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html
new file mode 100644
index 00000000..92a94d13
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html
@@ -0,0 +1,315 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SoftMaskingAlgorithm</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">SoftMaskingAlgorithm</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Soft</span><wbr><span>Masking</span><wbr><span><span>Algorithm</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">SoftMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="999822088%2FClasslikes%2F769193423" anchor-label="None" id="999822088%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-none/index.html">None</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="999822088%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-none/index.html">None</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1010319152%2FClasslikes%2F769193423" anchor-label="Tantan" id="1010319152%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-tantan/index.html">Tantan</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1010319152%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-tantan/index.html">Tantan</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1865273197%2FClasslikes%2F769193423" anchor-label="Seg" id="1865273197%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seg/index.html">Seg</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1865273197%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-seg/index.html">Seg</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="162019399%2FClasslikes%2F769193423" anchor-label="Motif" id="162019399%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif/index.html">Motif</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="162019399%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-motif/index.html">Motif</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="210681569%2FClasslikes%2F769193423" anchor-label="Companion" id="210681569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="210681569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1794228015%2FProperties%2F769193423" anchor-label="cliValue" id="1794228015%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1794228015%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="891125322%2FProperties%2F769193423" anchor-label="entries" id="891125322%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="891125322%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861679141%2FProperties%2F769193423" anchor-label="key" id="-861679141%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="key.html"><span><span>key</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861679141%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1588175817%2FProperties%2F769193423" anchor-label="value" id="1588175817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value.html"><span><span>value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1588175817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="90646868%2FFunctions%2F769193423" anchor-label="toString" id="90646868%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="90646868%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="858220434%2FFunctions%2F769193423" anchor-label="valueOf" id="858220434%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="858220434%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SoftMaskingAlgorithm</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739902434%2FFunctions%2F769193423" anchor-label="values" id="-739902434%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739902434%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html
new file mode 100644
index 00000000..77e6ed16
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>key</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html">v0.2.0</a><a href="key.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/key/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">key</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>key</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="key.html">key</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html
new file mode 100644
index 00000000..53ec9410
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html
new file mode 100644
index 00000000..1ca3ca74
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">SoftMaskingAlgorithm</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html
new file mode 100644
index 00000000..e6007065
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>value</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html">v0.2.0</a><a href="value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/value/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">value</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="value.html">value</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html
new file mode 100644
index 00000000..482ac62e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">SoftMaskingAlgorithm</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html
new file mode 100644
index 00000000..bd584266
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlternativeFlatwormMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeFlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AlternativeFlatwormMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alternative</span><wbr><span>Flatworm</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlternativeFlatwormMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html
new file mode 100644
index 00000000..db6f1e17
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AlternativeYeastNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeYeastNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AlternativeYeastNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Alternative</span><wbr><span>Yeast</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AlternativeYeastNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html
new file mode 100644
index 00000000..b804547a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ArchaealPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ArchaealPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ArchaealPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Archaeal</span><wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ArchaealPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html
new file mode 100644
index 00000000..2962d957
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>AscidianMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AscidianMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">AscidianMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ascidian</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">AscidianMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html
new file mode 100644
index 00000000..c2795a79
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BacterialPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.BacterialPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">BacterialPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Bacterial</span><wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BacterialPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html
new file mode 100644
index 00000000..1bae525e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CandidateDivisionSR1</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CandidateDivisionSR1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CandidateDivisionSR1</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Candidate</span><wbr><span>Division</span><wbr><span><span>SR1</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CandidateDivisionSR1</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html
new file mode 100644
index 00000000..da7c542e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ChlorophyceanMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ChlorophyceanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ChlorophyceanMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Chlorophycean</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ChlorophyceanMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html
new file mode 100644
index 00000000..e378db09
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CiliateNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CiliateNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CiliateNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Ciliate</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CiliateNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html
new file mode 100644
index 00000000..de690e25
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CoelenterateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CoelenterateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">CoelenterateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Coelenterate</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">CoelenterateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html
new file mode 100644
index 00000000..b1e2eb0a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromInt</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-int.html">v0.2.0</a><a href="from-int.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion/fromInt/#kotlin.Int/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromInt</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Int</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html
new file mode 100644
index 00000000..2d5ef1c7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html
new file mode 100644
index 00000000..05f5c9e1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html
@@ -0,0 +1,123 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1101176051%2FFunctions%2F769193423" anchor-label="fromInt" id="1101176051%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-int.html"><span>from</span><wbr><span><span>Int</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1101176051%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-int.html"><span class="token function">fromInt</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1893100149%2FFunctions%2F769193423" anchor-label="fromJson" id="-1893100149%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1893100149%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">TranslatorGenCode</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html
new file mode 100644
index 00000000..65915379
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DasycladaceanNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.DasycladaceanNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">DasycladaceanNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Dasycladacean</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DasycladaceanNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html
new file mode 100644
index 00000000..6b5d539f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EchinodermMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EchinodermMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">EchinodermMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Echinoderm</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EchinodermMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html
new file mode 100644
index 00000000..3950efc2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>EuplotidNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EuplotidNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">EuplotidNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Euplotid</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">EuplotidNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html
new file mode 100644
index 00000000..15d114ce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FlatwormMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.FlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">FlatwormMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Flatworm</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">FlatwormMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html
new file mode 100644
index 00000000..06bba56d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Gracilibacteria</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Gracilibacteria///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Gracilibacteria</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Gracilibacteria</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Gracilibacteria</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html
new file mode 100644
index 00000000..682ae0e0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HexamitaNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.HexamitaNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">HexamitaNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hexamita</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">HexamitaNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html
new file mode 100644
index 00000000..86bbdcf9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>InvertebrateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.InvertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">InvertebrateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Invertebrate</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">InvertebrateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html
new file mode 100644
index 00000000..a5a4235c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MoldMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.MoldMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">MoldMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Mold</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MoldMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html
new file mode 100644
index 00000000..94db47f1
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mycoplasma</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Mycoplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Mycoplasma</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mycoplasma</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Mycoplasma</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html
new file mode 100644
index 00000000..ed0f2cac
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PachysolenTannophilusNuclear</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PachysolenTannophilusNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">PachysolenTannophilusNuclear</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Pachysolen</span><wbr><span>Tannophilus</span><wbr><span><span>Nuclear</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PachysolenTannophilusNuclear</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html
new file mode 100644
index 00000000..ccd69410
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PlantPlastid</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PlantPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">PlantPlastid</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Plant</span><wbr><span><span>Plastid</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PlantPlastid</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html
new file mode 100644
index 00000000..91374963
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ProtozoanMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ProtozoanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ProtozoanMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Protozoan</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ProtozoanMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html
new file mode 100644
index 00000000..155e8594
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RhabdopleuridaeMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.RhabdopleuridaeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">RhabdopleuridaeMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Rhabdopleuridae</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RhabdopleuridaeMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html
new file mode 100644
index 00000000..83cb54dc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ScenedesmusObliquusMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ScenedesmusObliquusMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ScenedesmusObliquusMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Scenedesmus</span><wbr><span>Obliquus</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ScenedesmusObliquusMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html
new file mode 100644
index 00000000..bccde453
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Spiroplasma</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Spiroplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Spiroplasma</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Spiroplasma</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Spiroplasma</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html
new file mode 100644
index 00000000..1b82f114
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Standard</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Standard///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">Standard</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Standard</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Standard</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html
new file mode 100644
index 00000000..e330eb80
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ThraustochytriumMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ThraustochytriumMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">ThraustochytriumMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Thraustochytrium</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ThraustochytriumMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html
new file mode 100644
index 00000000..b0eaf28f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TrematodeMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.TrematodeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">TrematodeMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Trematode</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">TrematodeMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html
new file mode 100644
index 00000000..d4c1f39f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>VertebrateMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.VertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">VertebrateMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Vertebrate</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">VertebrateMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html
new file mode 100644
index 00000000..8c980def
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html
@@ -0,0 +1,172 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>YeastMitochondrial</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.YeastMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="../index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">YeastMitochondrial</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Yeast</span><wbr><span><span>Mitochondrial</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">YeastMitochondrial</a></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="../cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="../to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html
new file mode 100644
index 00000000..34fb11c6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html
new file mode 100644
index 00000000..7156bf88
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>code</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/code.html">v0.2.0</a><a href="code.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/code/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">code</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>code</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html
new file mode 100644
index 00000000..af379b49
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html
new file mode 100644
index 00000000..b8453a40
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html
@@ -0,0 +1,675 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>TranslatorGenCode</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">TranslatorGenCode</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Translator</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">TranslatorGenCode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt; </span>, <a href="../../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-596220405%2FClasslikes%2F769193423" anchor-label="Standard" id="-596220405%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-standard/index.html">Standard</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-596220405%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-standard/index.html">Standard</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="342634391%2FClasslikes%2F769193423" anchor-label="VertebrateMitochondrial" id="342634391%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-vertebrate-mitochondrial/index.html">VertebrateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="342634391%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-vertebrate-mitochondrial/index.html">VertebrateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="925507011%2FClasslikes%2F769193423" anchor-label="YeastMitochondrial" id="925507011%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-yeast-mitochondrial/index.html">YeastMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="925507011%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-yeast-mitochondrial/index.html">YeastMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="559150443%2FClasslikes%2F769193423" anchor-label="MoldMitochondrial" id="559150443%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mold-mitochondrial/index.html">MoldMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="559150443%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mold-mitochondrial/index.html">MoldMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-653687761%2FClasslikes%2F769193423" anchor-label="ProtozoanMitochondrial" id="-653687761%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-protozoan-mitochondrial/index.html">ProtozoanMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-653687761%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-protozoan-mitochondrial/index.html">ProtozoanMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-745391016%2FClasslikes%2F769193423" anchor-label="CoelenterateMitochondrial" id="-745391016%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-coelenterate-mitochondrial/index.html">CoelenterateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-745391016%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-coelenterate-mitochondrial/index.html">CoelenterateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-305416600%2FClasslikes%2F769193423" anchor-label="Mycoplasma" id="-305416600%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mycoplasma/index.html">Mycoplasma</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-305416600%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-mycoplasma/index.html">Mycoplasma</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1011705083%2FClasslikes%2F769193423" anchor-label="Spiroplasma" id="-1011705083%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-spiroplasma/index.html">Spiroplasma</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1011705083%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-spiroplasma/index.html">Spiroplasma</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-37449198%2FClasslikes%2F769193423" anchor-label="InvertebrateMitochondrial" id="-37449198%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-invertebrate-mitochondrial/index.html">InvertebrateMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-37449198%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-invertebrate-mitochondrial/index.html">InvertebrateMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1339780325%2FClasslikes%2F769193423" anchor-label="CiliateNuclear" id="1339780325%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ciliate-nuclear/index.html">CiliateNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1339780325%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ciliate-nuclear/index.html">CiliateNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2035277037%2FClasslikes%2F769193423" anchor-label="DasycladaceanNuclear" id="-2035277037%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-dasycladacean-nuclear/index.html">DasycladaceanNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2035277037%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-dasycladacean-nuclear/index.html">DasycladaceanNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="792315601%2FClasslikes%2F769193423" anchor-label="HexamitaNuclear" id="792315601%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hexamita-nuclear/index.html">HexamitaNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="792315601%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-hexamita-nuclear/index.html">HexamitaNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-878701655%2FClasslikes%2F769193423" anchor-label="EchinodermMitochondrial" id="-878701655%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-echinoderm-mitochondrial/index.html">EchinodermMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-878701655%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-echinoderm-mitochondrial/index.html">EchinodermMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-370122823%2FClasslikes%2F769193423" anchor-label="FlatwormMitochondrial" id="-370122823%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-flatworm-mitochondrial/index.html">FlatwormMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-370122823%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-flatworm-mitochondrial/index.html">FlatwormMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="552855860%2FClasslikes%2F769193423" anchor-label="EuplotidNuclear" id="552855860%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-euplotid-nuclear/index.html">EuplotidNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="552855860%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-euplotid-nuclear/index.html">EuplotidNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-287753320%2FClasslikes%2F769193423" anchor-label="BacterialPlastid" id="-287753320%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-bacterial-plastid/index.html">BacterialPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-287753320%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-bacterial-plastid/index.html">BacterialPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1834196202%2FClasslikes%2F769193423" anchor-label="ArchaealPlastid" id="-1834196202%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-archaeal-plastid/index.html">ArchaealPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1834196202%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-archaeal-plastid/index.html">ArchaealPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1926376892%2FClasslikes%2F769193423" anchor-label="PlantPlastid" id="-1926376892%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-plant-plastid/index.html">PlantPlastid</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1926376892%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-plant-plastid/index.html">PlantPlastid</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1749043337%2FClasslikes%2F769193423" anchor-label="AlternativeYeastNuclear" id="-1749043337%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alternative-yeast-nuclear/index.html">AlternativeYeastNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1749043337%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-alternative-yeast-nuclear/index.html">AlternativeYeastNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2102570117%2FClasslikes%2F769193423" anchor-label="AscidianMitochondrial" id="-2102570117%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-ascidian-mitochondrial/index.html">AscidianMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2102570117%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-ascidian-mitochondrial/index.html">AscidianMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-427621504%2FClasslikes%2F769193423" anchor-label="AlternativeFlatwormMitochondrial" id="-427621504%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-alternative-flatworm-mitochondrial/index.html">AlternativeFlatwormMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-427621504%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-alternative-flatworm-mitochondrial/index.html">AlternativeFlatwormMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1353218062%2FClasslikes%2F769193423" anchor-label="ChlorophyceanMitochondrial" id="1353218062%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-chlorophycean-mitochondrial/index.html">ChlorophyceanMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1353218062%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-chlorophycean-mitochondrial/index.html">ChlorophyceanMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-493458974%2FClasslikes%2F769193423" anchor-label="TrematodeMitochondrial" id="-493458974%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-trematode-mitochondrial/index.html">TrematodeMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-493458974%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-trematode-mitochondrial/index.html">TrematodeMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1534719522%2FClasslikes%2F769193423" anchor-label="ScenedesmusObliquusMitochondrial" id="1534719522%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-scenedesmus-obliquus-mitochondrial/index.html">ScenedesmusObliquusMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1534719522%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-scenedesmus-obliquus-mitochondrial/index.html">ScenedesmusObliquusMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1166709414%2FClasslikes%2F769193423" anchor-label="ThraustochytriumMitochondrial" id="-1166709414%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-thraustochytrium-mitochondrial/index.html">ThraustochytriumMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1166709414%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-thraustochytrium-mitochondrial/index.html">ThraustochytriumMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1349300918%2FClasslikes%2F769193423" anchor-label="RhabdopleuridaeMitochondrial" id="1349300918%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-rhabdopleuridae-mitochondrial/index.html">RhabdopleuridaeMitochondrial</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1349300918%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-rhabdopleuridae-mitochondrial/index.html">RhabdopleuridaeMitochondrial</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="180518384%2FClasslikes%2F769193423" anchor-label="CandidateDivisionSR1" id="180518384%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-candidate-division-s-r1/index.html">CandidateDivisionSR1</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="180518384%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-candidate-division-s-r1/index.html">CandidateDivisionSR1</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1295548920%2FClasslikes%2F769193423" anchor-label="Gracilibacteria" id="-1295548920%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-gracilibacteria/index.html">Gracilibacteria</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1295548920%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-gracilibacteria/index.html">Gracilibacteria</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1491450705%2FClasslikes%2F769193423" anchor-label="PachysolenTannophilusNuclear" id="-1491450705%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-pachysolen-tannophilus-nuclear/index.html">PachysolenTannophilusNuclear</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1491450705%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-pachysolen-tannophilus-nuclear/index.html">PachysolenTannophilusNuclear</a></div></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="883395103%2FClasslikes%2F769193423" anchor-label="Companion" id="883395103%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="883395103%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-955018191%2FProperties%2F769193423" anchor-label="cliValue" id="-955018191%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-955018191%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1377595509%2FProperties%2F769193423" anchor-label="code" id="1377595509%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="code.html"><span><span>code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1377595509%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="code.html">code</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-u-byte/index.html">UByte</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="248250632%2FProperties%2F769193423" anchor-label="entries" id="248250632%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="248250632%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1636367958%2FFunctions%2F769193423" anchor-label="toString" id="1636367958%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="to-string.html"><span>to</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1636367958%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1194838420%2FFunctions%2F769193423" anchor-label="valueOf" id="1194838420%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1194838420%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">TranslatorGenCode</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1591924320%2FFunctions%2F769193423" anchor-label="values" id="-1591924320%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1591924320%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html
new file mode 100644
index 00000000..0bf3cd9e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>toString</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/to-string.html">v0.2.0</a><a href="to-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
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+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/toString/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">toString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>to</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">open </span><span class="token keyword">override </span><span class="token keyword">fun </span><a href="to-string.html"><span class="token function">toString</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html
new file mode 100644
index 00000000..34e939d7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">TranslatorGenCode</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html
new file mode 100644
index 00000000..59ab8dcd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">TranslatorGenCode</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">TranslatorGenCode</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html
new file mode 100644
index 00000000..1f8350bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>daa</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/daa.html">v0.2.0</a><a href="daa.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer/daa/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><a href="index.html">ViewAlignOptionContainer</a><span class="delimiter">/</span><span class="current">daa</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>daa</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><p class="paragraph">DIAMOND alignment archive (DAA) file</p><p class="paragraph">Flag = <code class="lang-kotlin">--daa</code> | <code class="lang-kotlin">-a</code></p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html
new file mode 100644
index 00000000..e69d1875
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ViewAlignOptionContainer</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.opts</a><span class="delimiter">/</span><span class="current">ViewAlignOptionContainer</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>View</span><wbr><span>Align</span><wbr><span>Option</span><wbr><span><span>Container</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">ViewAlignOptionContainer</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.commands/-view/index.html">View</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="1950775373%2FProperties%2F769193423" anchor-label="daa" id="1950775373%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="daa.html"><span><span>daa</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1950775373%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">var </span><a href="daa.html">daa</a><span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/nio/file/Path.html">Path</a></div><div class="brief "><p class="paragraph">DIAMOND alignment archive (DAA) file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html
new file mode 100644
index 00000000..7e72548f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html
@@ -0,0 +1,647 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.opts</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.opts////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.opts</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="-1172819569%2FClasslikes%2F769193423" anchor-label="AdvancedClusteringAlignmentOptionContainer" id="-1172819569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-clustering-alignment-option-container/index.html"><span>Advanced</span><wbr><span>Clustering</span><wbr><span>Alignment</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1172819569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-clustering-alignment-option-container/index.html">AdvancedClusteringAlignmentOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1637082332%2FClasslikes%2F769193423" anchor-label="AdvancedGeneralOptionContainer" id="1637082332%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-general-option-container/index.html"><span>Advanced</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1637082332%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-general-option-container/index.html">AdvancedGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1388950652%2FClasslikes%2F769193423" anchor-label="AdvancedQueryOptionContainer" id="1388950652%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-advanced-query-option-container/index.html"><span>Advanced</span><wbr><span>Query</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1388950652%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-advanced-query-option-container/index.html">AdvancedQueryOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1113456144%2FClasslikes%2F769193423" anchor-label="AlignerClusteringOptionContainer" id="-1113456144%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-clustering-option-container/index.html"><span>Aligner</span><wbr><span>Clustering</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1113456144%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-clustering-option-container/index.html">AlignerClusteringOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="256071372%2FClasslikes%2F769193423" anchor-label="AlignerClusteringRealignOptionContainer" id="256071372%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-clustering-realign-option-container/index.html"><span>Aligner</span><wbr><span>Clustering</span><wbr><span>Realign</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="256071372%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-clustering-realign-option-container/index.html">AlignerClusteringRealignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-248894966%2FClasslikes%2F769193423" anchor-label="AlignerGeneralOptionContainer" id="-248894966%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-general-option-container/index.html"><span>Aligner</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-248894966%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-general-option-container/index.html">AlignerGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-139639231%2FClasslikes%2F769193423" anchor-label="AlignerSensitivityOptionContainer" id="-139639231%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-sensitivity-option-container/index.html"><span>Aligner</span><wbr><span>Sensitivity</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-139639231%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-sensitivity-option-container/index.html">AlignerSensitivityOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="896314925%2FClasslikes%2F769193423" anchor-label="AlignerViewOptionContainer" id="896314925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-aligner-view-option-container/index.html"><span>Aligner</span><wbr><span>View</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="896314925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-aligner-view-option-container/index.html">AlignerViewOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1666670569%2FClasslikes%2F769193423" anchor-label="BenchmarkType" id="1666670569%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-benchmark-type/index.html"><span>Benchmark</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1666670569%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-benchmark-type/index.html">BenchmarkType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-benchmark-type/index.html">BenchmarkType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="528798806%2FClasslikes%2F769193423" anchor-label="ClusteringGeneralOptionContainer" id="528798806%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-general-option-container/index.html"><span>Clustering</span><wbr><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="528798806%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-general-option-container/index.html">ClusteringGeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-861548680%2FClasslikes%2F769193423" anchor-label="ClusteringInputOptionContainer" id="-861548680%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-input-option-container/index.html"><span>Clustering</span><wbr><span>Input</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-861548680%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-input-option-container/index.html">ClusteringInputOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1181373726%2FClasslikes%2F769193423" anchor-label="ClusteringReassignOptionContainer" id="1181373726%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-clustering-reassign-option-container/index.html"><span>Clustering</span><wbr><span>Reassign</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1181373726%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-clustering-reassign-option-container/index.html">ClusteringReassignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1536122282%2FClasslikes%2F769193423" anchor-label="CompositionBasedStats" id="1536122282%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-composition-based-stats/index.html"><span>Composition</span><wbr><span>Based</span><wbr><span><span>Stats</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1536122282%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-composition-based-stats/index.html">CompositionBasedStats</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-composition-based-stats/index.html">CompositionBasedStats</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-345033990%2FClasslikes%2F769193423" anchor-label="Compression" id="-345033990%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-compression/index.html"><span><span>Compression</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-345033990%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-compression/index.html">Compression</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-compression/index.html">Compression</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2053623292%2FClasslikes%2F769193423" anchor-label="DistributionType" id="-2053623292%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-distribution-type/index.html"><span>Distribution</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2053623292%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-distribution-type/index.html">DistributionType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-distribution-type/index.html">DistributionType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1379521447%2FClasslikes%2F769193423" anchor-label="DNAExtensionAlgorithm" id="-1379521447%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-n-a-extension-algorithm/index.html"><span>DNAExtension</span><wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1379521447%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1710202034%2FClasslikes%2F769193423" anchor-label="EdgeFormat" id="-1710202034%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-edge-format/index.html"><span>Edge</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1710202034%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-edge-format/index.html">EdgeFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-edge-format/index.html">EdgeFormat</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1318776418%2FClasslikes%2F769193423" anchor-label="ExtensionMode" id="-1318776418%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-extension-mode/index.html"><span>Extension</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1318776418%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-extension-mode/index.html">ExtensionMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-extension-mode/index.html">ExtensionMode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="995452572%2FClasslikes%2F769193423" anchor-label="GeneralDBOptionContainer" id="995452572%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-d-b-option-container/index.html"><span>General</span><wbr><span>DBOption</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="995452572%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-d-b-option-container/index.html">GeneralDBOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1262004642%2FClasslikes%2F769193423" anchor-label="GeneralOptionContainer" id="-1262004642%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-option-container/index.html"><span>General</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1262004642%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-option-container/index.html">GeneralOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1054542316%2FClasslikes%2F769193423" anchor-label="GeneralOutputHeaderOptionContainer" id="1054542316%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-output-header-option-container/index.html"><span>General</span><wbr><span>Output</span><wbr><span>Header</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1054542316%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-output-header-option-container/index.html">GeneralOutputHeaderOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="821505983%2FClasslikes%2F769193423" anchor-label="GeneralOutputOptionContainer" id="821505983%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-general-output-option-container/index.html"><span>General</span><wbr><span>Output</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="821505983%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-general-output-option-container/index.html">GeneralOutputOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="207795393%2FClasslikes%2F769193423" anchor-label="GraphAlgorithm" id="207795393%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-graph-algorithm/index.html"><span>Graph</span><wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="207795393%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-graph-algorithm/index.html">GraphAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-graph-algorithm/index.html">GraphAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1960721024%2FClasslikes%2F769193423" anchor-label="HeaderOption" id="-1960721024%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-header-option/index.html"><span>Header</span><wbr><span><span>Option</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1960721024%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-header-option/index.html">HeaderOption</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-header-option/index.html">HeaderOption</a><span class="token operator">&gt; </span></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1394090850%2FClasslikes%2F769193423" anchor-label="HiddenOptionContainer" id="-1394090850%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hidden-option-container/index.html"><span>Hidden</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394090850%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-hidden-option-container/index.html">HiddenOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-127834180%2FClasslikes%2F769193423" anchor-label="InputType" id="-127834180%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-input-type/index.html"><span>Input</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-127834180%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-input-type/index.html">InputType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-input-type/index.html">InputType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1243335801%2FClasslikes%2F769193423" anchor-label="MaskingMode" id="-1243335801%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-masking-mode/index.html"><span>Masking</span><wbr><span><span>Mode</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1243335801%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-masking-mode/index.html">MaskingMode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-masking-mode/index.html">MaskingMode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2075707784%2FClasslikes%2F769193423" anchor-label="MotifMaskingAlgorithm" id="-2075707784%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-motif-masking-algorithm/index.html"><span>Motif</span><wbr><span>Masking</span><wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2075707784%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1026716172%2FClasslikes%2F769193423" anchor-label="OutputFormatOptionContainer" id="1026716172%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-output-format-option-container/index.html"><span>Output</span><wbr><span>Format</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1026716172%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-output-format-option-container/index.html">OutputFormatOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="802514693%2FClasslikes%2F769193423" anchor-label="QueryFileFormat" id="802514693%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-file-format/index.html"><span>Query</span><wbr><span>File</span><wbr><span><span>Format</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="802514693%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-query-file-format/index.html">QueryFileFormat</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-query-file-format/index.html">QueryFileFormat</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="144966770%2FClasslikes%2F769193423" anchor-label="QueryStrand" id="144966770%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-query-strand/index.html"><span>Query</span><wbr><span><span>Strand</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="144966770%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-query-strand/index.html">QueryStrand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-query-strand/index.html">QueryStrand</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1107208205%2FClasslikes%2F769193423" anchor-label="ScoreMatrix" id="1107208205%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-score-matrix/index.html"><span>Score</span><wbr><span><span>Matrix</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1107208205%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-score-matrix/index.html">ScoreMatrix</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-score-matrix/index.html">ScoreMatrix</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-106917919%2FClasslikes%2F769193423" anchor-label="Sensitivity" id="-106917919%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sensitivity/index.html"><span><span>Sensitivity</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-106917919%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-sensitivity/index.html">Sensitivity</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-sensitivity/index.html">Sensitivity</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1707355751%2FClasslikes%2F769193423" anchor-label="SequenceType" id="1707355751%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sequence-type/index.html"><span>Sequence</span><wbr><span><span>Type</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1707355751%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-sequence-type/index.html">SequenceType</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-sequence-type/index.html">SequenceType</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1149418783%2FClasslikes%2F769193423" anchor-label="SoftMaskingAlgorithm" id="1149418783%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-soft-masking-algorithm/index.html"><span>Soft</span><wbr><span>Masking</span><wbr><span><span>Algorithm</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1149418783%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-913908259%2FClasslikes%2F769193423" anchor-label="TranslatorGenCode" id="-913908259%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-translator-gen-code/index.html"><span>Translator</span><wbr><span>Gen</span><wbr><span><span>Code</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-913908259%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-translator-gen-code/index.html">TranslatorGenCode</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-translator-gen-code/index.html">TranslatorGenCode</a><span class="token operator">&gt; </span>, <a href="../org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1252604054%2FClasslikes%2F769193423" anchor-label="ViewAlignOptionContainer" id="1252604054%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view-align-option-container/index.html"><span>View</span><wbr><span>Align</span><wbr><span>Option</span><wbr><span><span>Container</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1252604054%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-view-align-option-container/index.html">ViewAlignOptionContainer</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html
new file mode 100644
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--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>cliValue</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/cli-value.html">v0.2.0</a><a href="cli-value.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum/cliValue/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.util</a><span class="delimiter">/</span><a href="index.html">CliEnum</a><span class="delimiter">/</span><span class="current">cliValue</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>cli</span><wbr><span><span>Value</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html
new file mode 100644
index 00000000..0313c3f2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html
@@ -0,0 +1,108 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>CliEnum</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
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+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
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+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond.util/-cli-enum/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
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+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond.util</a><span class="delimiter">/</span><span class="current">CliEnum</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cli</span><wbr><span><span>Enum</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="index.html">CliEnum</a></div><h4 class="">Inheritors</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-benchmark-type/index.html">BenchmarkType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/index.html">CompositionBasedStats</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-compression/index.html">Compression</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/index.html">DNAExtensionAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-distribution-type/index.html">DistributionType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-edge-format/index.html">EdgeFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-extension-mode/index.html">ExtensionMode</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/index.html">GraphAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-input-type/index.html">InputType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-masking-mode/index.html">MaskingMode</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/index.html">MotifMaskingAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-file-format/index.html">QueryFileFormat</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-query-strand/index.html">QueryStrand</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-score-matrix/index.html">ScoreMatrix</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-sensitivity/index.html">Sensitivity</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-sequence-type/index.html">SequenceType</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/index.html">SoftMaskingAlgorithm</a></div></span></div><div></div></div></div><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="../../org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/index.html">TranslatorGenCode</a></div></span></div><div></div></div></div></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="436176817%2FProperties%2F769193423" anchor-label="cliValue" id="436176817%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="cli-value.html"><span>cli</span><wbr><span><span>Value</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="436176817%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">abstract </span><span class="token keyword">val </span><a href="cli-value.html">cliValue</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
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+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html
new file mode 100644
index 00000000..487cf7dd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond.util/index.html
@@ -0,0 +1,107 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond.util</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond.util/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../diamondcli/org.veupathdb.lib.cli.diamond.util/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond.util////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond.util</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="87226973%2FClasslikes%2F769193423" anchor-label="CliEnum" id="87226973%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cli-enum/index.html"><span>Cli</span><wbr><span><span>Enum</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="87226973%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">interface </span><a href="-cli-enum/index.html">CliEnum</a></div></div></div>
+                </div>
+              </div>
+            </div>
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+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html
new file mode 100644
index 00000000..759be186
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Benchmark</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-benchmark/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Benchmark///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Benchmark</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Benchmark</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Benchmark</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html
new file mode 100644
index 00000000..76aab460
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastN</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-n/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastN///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>N</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">BlastN</a></div></div><p class="paragraph">Align DNA query sequences against a DNA reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html
new file mode 100644
index 00000000..87de66bd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastP</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-p/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>P</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastP</a></div></div><p class="paragraph">Align protein query sequences against a protein reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html
new file mode 100644
index 00000000..3b24bde2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>BlastX</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-blast-x/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.BlastX///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">BlastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Blast</span><wbr><span><span>X</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">BlastX</a></div></div><p class="paragraph">Align translated DNA query sequences against a protein reference database.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html
new file mode 100644
index 00000000..75f67c93
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ClusterRealign</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster-realign/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ClusterRealign///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ClusterRealign</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Cluster</span><wbr><span><span>Realign</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ClusterRealign</a></div></div><p class="paragraph">Realign clustered sequences against their centroids</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html
new file mode 100644
index 00000000..63e13fb2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cluster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cluster/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Cluster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Cluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Cluster</a></div></div><p class="paragraph">Cluster protein sequences</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html
new file mode 100644
index 00000000..c075c28d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromJson</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-json.html">v0.2.0</a><a href="from-json.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromJson/#com.fasterxml.jackson.databind.JsonNode/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromJson</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>Json</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-json.html">json</a> was not a string, or did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>json</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">JsonNode</code> to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the given input value was not a JSON string, or did not represent a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html
new file mode 100644
index 00000000..76ce4249
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromStringOrNull</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string-or-null.html">v0.2.0</a><a href="from-string-or-null.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromStringOrNull/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromStringOrNull</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span>String</span><wbr><span>Or</span><wbr><span><span>Null</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a><span class="token operator">?</span></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, returning <code class="lang-kotlin">null</code> if the given <a href="from-string-or-null.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input, or <code class="lang-kotlin">null</code> if the input did not match any <code class="lang-kotlin">DiamondCommand</code> value.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>value</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">String</code> to parse.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html
new file mode 100644
index 00000000..4ecc68ef
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>fromString</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/from-string.html">v0.2.0</a><a href="from-string.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion/fromString/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><a href="index.html">Companion</a><span class="delimiter">/</span><span class="current">fromString</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>from</span><wbr><span><span>String</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-string.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p><span class="kdoc-tag"><h4 class="">Return</h4><p class="paragraph">A <a href="../index.html">DiamondCommand</a> value matching the given input.</p></span><h4 class="">Parameters</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><u><span><span>value</span></span></u></div></span></div><div><div class="title"><p class="paragraph"><code class="lang-kotlin">String</code> to parse.</p></div></div></div></div></div><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if the given input value did not represent a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html
new file mode 100644
index 00000000..a80b145c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Companion</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Companion</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Companion</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Companion</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1418809063%2FFunctions%2F769193423" anchor-label="fromJson" id="1418809063%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-json.html"><span>from</span><wbr><span><span>Json</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1418809063%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-json.html"><span class="token function">fromJson</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-json.html">json</a> was not a string, or did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1444895237%2FFunctions%2F769193423" anchor-label="fromString" id="-1444895237%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string.html"><span>from</span><wbr><span><span>String</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1444895237%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string.html"><span class="token function">fromString</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, throwing an <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html">IllegalArgumentException</a> if the given <a href="from-string.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1901380005%2FFunctions%2F769193423" anchor-label="fromStringOrNull" id="1901380005%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="from-string-or-null.html"><span>from</span><wbr><span>String</span><wbr><span>Or</span><wbr><span><span>Null</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1901380005%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.jvm/-jvm-static/index.html"><span class="token annotation builtin">JvmStatic</span></a></div></div><span class="token keyword">fun </span><a href="from-string-or-null.html"><span class="token function">fromStringOrNull</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../index.html">DiamondCommand</a><span class="token operator">?</span></div><div class="brief "><p class="paragraph">Attempts to parse a <a href="../index.html">DiamondCommand</a> instance from the given <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a>, returning <code class="lang-kotlin">null</code> if the given <a href="from-string-or-null.html">value</a> did not contain a valid <code class="lang-kotlin">DiamondCommand</code> value.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html
new file mode 100644
index 00000000..126376fb
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Composition</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-composition/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Composition///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Composition</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Composition</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Composition</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html
new file mode 100644
index 00000000..11ec0d45
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ComputeMedoids</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-compute-medoids/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ComputeMedoids///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ComputeMedoids</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Compute</span><wbr><span><span>Medoids</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ComputeMedoids</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html
new file mode 100644
index 00000000..55ab578b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Cut</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-cut/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Cut///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Cut</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Cut</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Cut</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html
new file mode 100644
index 00000000..d106f65f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBInfo</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-info/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DBInfo///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DBInfo</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBInfo</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DBInfo</a></div></div><p class="paragraph">Print information about a database file.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html
new file mode 100644
index 00000000..ce738caa
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DBStats</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-d-b-stats/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DBStats///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DBStats</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>DBStats</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">DBStats</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html
new file mode 100644
index 00000000..e03fb8ef
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DeepClustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-deep-clustering/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.DeepClustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">DeepClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Deep</span><wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">DeepClustering</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html
new file mode 100644
index 00000000..3a7dccf0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FastQ2FastA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fast-q2-fast-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FastQ2FastA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FastQ2FastA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Fast</span><wbr><span>Q2Fast</span><wbr><span><span>A</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FastQ2FastA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html
new file mode 100644
index 00000000..29e68f32
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FetchSeq</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-fetch-seq/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FetchSeq///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FetchSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Fetch</span><wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FetchSeq</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html
new file mode 100644
index 00000000..c52e6aca
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FilterBlastTab</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-filter-blast-tab/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FilterBlastTab///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FilterBlastTab</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Filter</span><wbr><span>Blast</span><wbr><span><span>Tab</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FilterBlastTab</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html
new file mode 100644
index 00000000..7668f817
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>FindShapes</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-find-shapes/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.FindShapes///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">FindShapes</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Find</span><wbr><span><span>Shapes</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">FindShapes</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html
new file mode 100644
index 00000000..76cf0da6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GetSeq</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-get-seq/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.GetSeq///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">GetSeq</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Get</span><wbr><span><span>Seq</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GetSeq</a></div></div><p class="paragraph">Retrieve sequences from a DIAMOND database file</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html
new file mode 100644
index 00000000..066f2029
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>GreedyVortexCover</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-greedy-vortex-cover/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.GreedyVortexCover///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">GreedyVortexCover</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Greedy</span><wbr><span>Vortex</span><wbr><span><span>Cover</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">GreedyVortexCover</a></div></div><p class="paragraph">Compute greedy vertex cover</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html
new file mode 100644
index 00000000..dd30acd0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>HashSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-hash-seqs/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.HashSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">HashSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Hash</span><wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">HashSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html
new file mode 100644
index 00000000..c111dd06
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Help</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-help/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Help///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Help</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Help</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Help</a></div></div><p class="paragraph">Print help message.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html
new file mode 100644
index 00000000..61758cf6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>IndexFastA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-index-fast-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.IndexFastA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">IndexFastA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Index</span><wbr><span>Fast</span><wbr><span><span>A</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">IndexFastA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html
new file mode 100644
index 00000000..29642d48
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Join</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-join/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Join///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Join</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Join</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Join</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html
new file mode 100644
index 00000000..1e011df0
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LengthSort</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-length-sort/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.LengthSort///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">LengthSort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Length</span><wbr><span><span>Sort</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">LengthSort</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html
new file mode 100644
index 00000000..e1ab257f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>LinearCluster</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-linear-cluster/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.LinearCluster///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">LinearCluster</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Linear</span><wbr><span><span>Cluster</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">LinearCluster</a></div></div><p class="paragraph">Cluster protein sequences in linear time</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html
new file mode 100644
index 00000000..b38a273f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ListSeeds</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-list-seeds/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ListSeeds///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ListSeeds</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>List</span><wbr><span><span>Seeds</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ListSeeds</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html
new file mode 100644
index 00000000..cd6b2be7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeDB</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MakeDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MakeDB</a></div></div><p class="paragraph">Create a DIAMOND formatted reference database from a FASTA input file.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html
new file mode 100644
index 00000000..2810e934
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MakeIndex</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-index/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeIndex///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MakeIndex</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Make</span><wbr><span><span>Index</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MakeIndex</a></div></div><p class="paragraph">Make database index</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html
new file mode 100644
index 00000000..363bac42
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mask</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mask/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Mask///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Mask</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mask</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Mask</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html
new file mode 100644
index 00000000..80d47473
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>MergeDAA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-merge-d-a-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MergeDAA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">MergeDAA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Merge</span><wbr><span><span>DAA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">MergeDAA</a></div></div><p class="paragraph">Merge DAA files</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html
new file mode 100644
index 00000000..6e49f17f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ModelSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-model-seqs/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ModelSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ModelSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Model</span><wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ModelSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html
new file mode 100644
index 00000000..a117b4f3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Mutate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-mutate/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Mutate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Mutate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Mutate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Mutate</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html
new file mode 100644
index 00000000..e6761eb8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>PrepDB</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.PrepDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">PrepDB</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Prep</span><wbr><span><span>DB</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">PrepDB</a></div></div><p class="paragraph">Prepare BLAST database for use with Diamond. This call requires the path to the BLAST database (option <code class="lang-kotlin">-d</code>) and will write a number of small auxiliary files into the database directory.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html
new file mode 100644
index 00000000..be2e4448
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ROCID</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c-i-d/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ROCID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ROCID</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ROCID</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ROCID</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html
new file mode 100644
index 00000000..343d9103
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ROC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-r-o-c/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ROC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ROC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>ROC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ROC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html
new file mode 100644
index 00000000..29f75930
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RandomSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-random-seqs/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.RandomSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">RandomSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Random</span><wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">RandomSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html
new file mode 100644
index 00000000..4d7ed50e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReadSim</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-read-sim/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ReadSim///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ReadSim</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Read</span><wbr><span><span>Sim</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ReadSim</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html
new file mode 100644
index 00000000..62958a52
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ReassignClusters</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reassign-clusters/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ReassignClusters///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ReassignClusters</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Reassign</span><wbr><span><span>Clusters</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">ReassignClusters</a></div></div><p class="paragraph">Reassign clustered sequences to the closest centroid</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html
new file mode 100644
index 00000000..2ec37e74
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>RecomputeClustering</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-recompute-clustering/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.RecomputeClustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">RecomputeClustering</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Recompute</span><wbr><span><span>Clustering</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">RecomputeClustering</a></div></div><p class="paragraph">Recompute clustering to fix errors</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html
new file mode 100644
index 00000000..3a94985d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Reverse</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-reverse/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Reverse///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Reverse</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Reverse</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Reverse</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html
new file mode 100644
index 00000000..292a6626
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SeedStat</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-seed-stat/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SeedStat///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SeedStat</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Seed</span><wbr><span><span>Stat</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SeedStat</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html
new file mode 100644
index 00000000..cbc7c6ce
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>ShowCBS</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-show-c-b-s/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.ShowCBS///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">ShowCBS</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Show</span><wbr><span><span>CBS</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">ShowCBS</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html
new file mode 100644
index 00000000..c4daa621
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SimulateSeqs</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-simulate-seqs/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SimulateSeqs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SimulateSeqs</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Simulate</span><wbr><span><span>Seqs</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SimulateSeqs</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html
new file mode 100644
index 00000000..7826f5c9
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>SmithWaterman</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-smith-waterman/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.SmithWaterman///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">SmithWaterman</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Smith</span><wbr><span><span>Waterman</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">SmithWaterman</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html
new file mode 100644
index 00000000..964c0c77
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Sort</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-sort/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Sort///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Sort</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Sort</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Sort</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html
new file mode 100644
index 00000000..59d38e1f
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Split</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-split/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Split///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Split</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Split</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Split</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html
new file mode 100644
index 00000000..0ac39d41
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Test</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-test/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Test///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Test</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Test</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Test</a></div></div><p class="paragraph">Run a series of test cases and verify the output against reference hashes.</p><p class="paragraph">This command will exit with code <code class="lang-kotlin">0</code> if all tests have passed and <code class="lang-kotlin">1</code> otherwise.</p><p class="paragraph">Running this command requires write access to the current working directory.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html
new file mode 100644
index 00000000..3bde7c9b
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Translate</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-translate/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Translate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Translate</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Translate</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">Translate</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html
new file mode 100644
index 00000000..0d016734
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UpGMAMC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a-m-c/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.UpGMAMC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">UpGMAMC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Up</span><wbr><span><span>GMAMC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">UpGMAMC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html
new file mode 100644
index 00000000..b686cfa3
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>UpGMA</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-up-g-m-a/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.UpGMA///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">UpGMA</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Up</span><wbr><span><span>GMA</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">UpGMA</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html
new file mode 100644
index 00000000..2ef47d07
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Version</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-version/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Version///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">Version</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Version</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">Version</a></div></div><p class="paragraph">Print version information.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html
new file mode 100644
index 00000000..4b1b59ef
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>View</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-view/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.View///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">View</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>View</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="index.html">View</a></div></div><p class="paragraph">Generate formatted output from DAA files.</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html
new file mode 100644
index 00000000..4b1d6368
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>WC</title>
+    <link href="../../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../../styles/style.css" rel="Stylesheet">
+<link href="../../../../styles/main.css" rel="Stylesheet">
+<link href="../../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-w-c/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.WC///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+  <div class="breadcrumbs"><a href="../../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="../index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">WC</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>WC</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="index.html">WC</a></div></div><p class="paragraph">???</p></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html
new file mode 100644
index 00000000..b9a8253e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>command</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html">v0.2.0</a><a href="command.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/command/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">command</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>command</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html
new file mode 100644
index 00000000..7d2fb485
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>entries</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html">v0.2.0</a><a href="entries.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/entries/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">entries</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>entries</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the enum entries.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html
new file mode 100644
index 00000000..960aa3b2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html
@@ -0,0 +1,990 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondCommand</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondCommand</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr><span><span>Command</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="index.html">DiamondCommand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt; </span></div><p class="paragraph">Enum of DIAMOND commands.</p><p class="paragraph">DIAMOND Docs:</p><blockquote class="quotation"><p class="paragraph">Commands are issued as the first parameter on the command line and set the task to be run by the program.</p></blockquote><span class="kdoc-tag"><h4 class="">Since</h4><p class="paragraph">v1.0.0</p></span></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button><button class="section-tab" data-togglable="ENTRY">Entries</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="ENTRY">
+        <h2 class="">Entries</h2>
+        <div class="table"><a data-name="-400366890%2FClasslikes%2F769193423" anchor-label="MakeDB" id="-400366890%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-d-b/index.html">MakeDB</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-400366890%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-make-d-b/index.html">MakeDB</a></div></div><div class="brief "><p class="paragraph">Create a DIAMOND formatted reference database from a FASTA input file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1046581013%2FClasslikes%2F769193423" anchor-label="PrepDB" id="1046581013%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-prep-d-b/index.html">PrepDB</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1046581013%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-prep-d-b/index.html">PrepDB</a></div></div><div class="brief "><p class="paragraph">Prepare BLAST database for use with Diamond. This call requires the path to the BLAST database (option <code class="lang-kotlin">-d</code>) and will write a number of small auxiliary files into the database directory.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2009124798%2FClasslikes%2F769193423" anchor-label="BlastP" id="-2009124798%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-p/index.html">BlastP</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2009124798%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-p/index.html">BlastP</a></div></div><div class="brief "><p class="paragraph">Align protein query sequences against a protein reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="547820106%2FClasslikes%2F769193423" anchor-label="BlastX" id="547820106%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-x/index.html">BlastX</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="547820106%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-blast-x/index.html">BlastX</a></div></div><div class="brief "><p class="paragraph">Align translated DNA query sequences against a protein reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="397556303%2FClasslikes%2F769193423" anchor-label="View" id="397556303%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-view/index.html">View</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="397556303%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-view/index.html">View</a></div></div><div class="brief "><p class="paragraph">Generate formatted output from DAA files.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-798691818%2FClasslikes%2F769193423" anchor-label="DBInfo" id="-798691818%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-info/index.html">DBInfo</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-798691818%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-d-b-info/index.html">DBInfo</a></div></div><div class="brief "><p class="paragraph">Print information about a database file.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1814859734%2FClasslikes%2F769193423" anchor-label="Version" id="1814859734%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-version/index.html">Version</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1814859734%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-version/index.html">Version</a></div></div><div class="brief "><p class="paragraph">Print version information.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-810908181%2FClasslikes%2F769193423" anchor-label="Help" id="-810908181%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-help/index.html">Help</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-810908181%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-help/index.html">Help</a></div></div><div class="brief "><p class="paragraph">Print help message.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="324340604%2FClasslikes%2F769193423" anchor-label="Test" id="324340604%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-test/index.html">Test</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="324340604%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-test/index.html">Test</a></div></div><div class="brief "><p class="paragraph">Run a series of test cases and verify the output against reference hashes.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-308984456%2FClasslikes%2F769193423" anchor-label="Cluster" id="-308984456%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster/index.html">Cluster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-308984456%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-cluster/index.html">Cluster</a></div></div><div class="brief "><p class="paragraph">Cluster protein sequences</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="930254291%2FClasslikes%2F769193423" anchor-label="LinearCluster" id="930254291%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-linear-cluster/index.html">LinearCluster</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="930254291%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-linear-cluster/index.html">LinearCluster</a></div></div><div class="brief "><p class="paragraph">Cluster protein sequences in linear time</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-172263870%2FClasslikes%2F769193423" anchor-label="ClusterRealign" id="-172263870%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cluster-realign/index.html">ClusterRealign</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-172263870%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-cluster-realign/index.html">ClusterRealign</a></div></div><div class="brief "><p class="paragraph">Realign clustered sequences against their centroids</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1010397590%2FClasslikes%2F769193423" anchor-label="RecomputeClustering" id="-1010397590%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-recompute-clustering/index.html">RecomputeClustering</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1010397590%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-recompute-clustering/index.html">RecomputeClustering</a></div></div><div class="brief "><p class="paragraph">Recompute clustering to fix errors</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1200551707%2FClasslikes%2F769193423" anchor-label="ReassignClusters" id="-1200551707%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reassign-clusters/index.html">ReassignClusters</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1200551707%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-reassign-clusters/index.html">ReassignClusters</a></div></div><div class="brief "><p class="paragraph">Reassign clustered sequences to the closest centroid</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1658699114%2FClasslikes%2F769193423" anchor-label="MergeDAA" id="-1658699114%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-merge-d-a-a/index.html">MergeDAA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1658699114%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-merge-d-a-a/index.html">MergeDAA</a></div></div><div class="brief "><p class="paragraph">Merge DAA files</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2055561133%2FClasslikes%2F769193423" anchor-label="GetSeq" id="-2055561133%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-get-seq/index.html">GetSeq</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2055561133%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-get-seq/index.html">GetSeq</a></div></div><div class="brief "><p class="paragraph">Retrieve sequences from a DIAMOND database file</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-158371070%2FClasslikes%2F769193423" anchor-label="MakeIndex" id="-158371070%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-make-index/index.html">MakeIndex</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-158371070%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-make-index/index.html">MakeIndex</a></div></div><div class="brief "><p class="paragraph">Make database index</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1775627687%2FClasslikes%2F769193423" anchor-label="GreedyVortexCover" id="1775627687%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1775627687%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-greedy-vortex-cover/index.html">GreedyVortexCover</a></div></div><div class="brief "><p class="paragraph">Compute greedy vertex cover</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1436749500%2FClasslikes%2F769193423" anchor-label="ROC" id="-1436749500%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-r-o-c/index.html">ROC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1436749500%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-r-o-c/index.html">ROC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="158480059%2FClasslikes%2F769193423" anchor-label="Benchmark" id="158480059%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-benchmark/index.html">Benchmark</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="158480059%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-benchmark/index.html">Benchmark</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="455909790%2FClasslikes%2F769193423" anchor-label="DeepClustering" id="455909790%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-deep-clustering/index.html">DeepClustering</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="455909790%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><a href="-deep-clustering/index.html">DeepClustering</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="39418625%2FClasslikes%2F769193423" anchor-label="RandomSeqs" id="39418625%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-random-seqs/index.html">RandomSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="39418625%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-random-seqs/index.html">RandomSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1981337480%2FClasslikes%2F769193423" anchor-label="Sort" id="1981337480%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-sort/index.html">Sort</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1981337480%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-sort/index.html">Sort</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-778525665%2FClasslikes%2F769193423" anchor-label="DBStats" id="-778525665%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-d-b-stats/index.html">DBStats</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-778525665%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-d-b-stats/index.html">DBStats</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1812659286%2FClasslikes%2F769193423" anchor-label="Mask" id="1812659286%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mask/index.html">Mask</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1812659286%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-mask/index.html">Mask</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2057448442%2FClasslikes%2F769193423" anchor-label="FastQ2FastA" id="-2057448442%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fast-q2-fast-a/index.html">FastQ2FastA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2057448442%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-fast-q2-fast-a/index.html">FastQ2FastA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="170880159%2FClasslikes%2F769193423" anchor-label="ReadSim" id="170880159%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-read-sim/index.html">ReadSim</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="170880159%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-read-sim/index.html">ReadSim</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1145093391%2FClasslikes%2F769193423" anchor-label="SeedStat" id="1145093391%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-seed-stat/index.html">SeedStat</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1145093391%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-seed-stat/index.html">SeedStat</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1718446340%2FClasslikes%2F769193423" anchor-label="SmithWaterman" id="1718446340%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-smith-waterman/index.html">SmithWaterman</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1718446340%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-smith-waterman/index.html">SmithWaterman</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1153960116%2FClasslikes%2F769193423" anchor-label="Translate" id="-1153960116%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-translate/index.html">Translate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1153960116%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-translate/index.html">Translate</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="795021887%2FClasslikes%2F769193423" anchor-label="FilterBlastTab" id="795021887%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-filter-blast-tab/index.html">FilterBlastTab</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="795021887%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-filter-blast-tab/index.html">FilterBlastTab</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="104503925%2FClasslikes%2F769193423" anchor-label="ShowCBS" id="104503925%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-show-c-b-s/index.html">ShowCBS</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="104503925%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-show-c-b-s/index.html">ShowCBS</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-178817374%2FClasslikes%2F769193423" anchor-label="SimulateSeqs" id="-178817374%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-simulate-seqs/index.html">SimulateSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-178817374%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-simulate-seqs/index.html">SimulateSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1179478296%2FClasslikes%2F769193423" anchor-label="Split" id="1179478296%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-split/index.html">Split</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1179478296%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-split/index.html">Split</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="933040926%2FClasslikes%2F769193423" anchor-label="UpGMA" id="933040926%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-up-g-m-a/index.html">UpGMA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="933040926%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-up-g-m-a/index.html">UpGMA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-449810508%2FClasslikes%2F769193423" anchor-label="UpGMAMC" id="-449810508%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-up-g-m-a-m-c/index.html">UpGMAMC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-449810508%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-up-g-m-a-m-c/index.html">UpGMAMC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1765990304%2FClasslikes%2F769193423" anchor-label="Reverse" id="-1765990304%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-reverse/index.html">Reverse</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1765990304%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-reverse/index.html">Reverse</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2040177176%2FClasslikes%2F769193423" anchor-label="ComputeMedoids" id="-2040177176%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-compute-medoids/index.html">ComputeMedoids</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2040177176%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-compute-medoids/index.html">ComputeMedoids</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1078299216%2FClasslikes%2F769193423" anchor-label="Mutate" id="-1078299216%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-mutate/index.html">Mutate</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1078299216%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-mutate/index.html">Mutate</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1614031135%2FClasslikes%2F769193423" anchor-label="ROCID" id="1614031135%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-r-o-c-i-d/index.html">ROCID</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1614031135%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-r-o-c-i-d/index.html">ROCID</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-827891531%2FClasslikes%2F769193423" anchor-label="FindShapes" id="-827891531%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-find-shapes/index.html">FindShapes</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-827891531%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-find-shapes/index.html">FindShapes</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-645422040%2FClasslikes%2F769193423" anchor-label="Composition" id="-645422040%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-composition/index.html">Composition</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-645422040%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-composition/index.html">Composition</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="730622484%2FClasslikes%2F769193423" anchor-label="Join" id="730622484%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-join/index.html">Join</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="730622484%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-join/index.html">Join</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="10640908%2FClasslikes%2F769193423" anchor-label="HashSeqs" id="10640908%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-hash-seqs/index.html">HashSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="10640908%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-hash-seqs/index.html">HashSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2123106910%2FClasslikes%2F769193423" anchor-label="ListSeeds" id="-2123106910%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-list-seeds/index.html">ListSeeds</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2123106910%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-list-seeds/index.html">ListSeeds</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1161257053%2FClasslikes%2F769193423" anchor-label="IndexFastA" id="1161257053%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-index-fast-a/index.html">IndexFastA</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1161257053%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-index-fast-a/index.html">IndexFastA</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-195930129%2FClasslikes%2F769193423" anchor-label="FetchSeq" id="-195930129%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-fetch-seq/index.html">FetchSeq</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-195930129%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-fetch-seq/index.html">FetchSeq</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1574619200%2FClasslikes%2F769193423" anchor-label="BlastN" id="-1574619200%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-blast-n/index.html">BlastN</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1574619200%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-blast-n/index.html">BlastN</a></div></div><div class="brief "><p class="paragraph">Align DNA query sequences against a DNA reference database.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1110674574%2FClasslikes%2F769193423" anchor-label="LengthSort" id="1110674574%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-length-sort/index.html">LengthSort</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1110674574%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-length-sort/index.html">LengthSort</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-558648938%2FClasslikes%2F769193423" anchor-label="WC" id="-558648938%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-w-c/index.html">WC</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-558648938%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-w-c/index.html">WC</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-1050022720%2FClasslikes%2F769193423" anchor-label="Cut" id="-1050022720%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-cut/index.html">Cut</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1050022720%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-cut/index.html">Cut</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="60827771%2FClasslikes%2F769193423" anchor-label="ModelSeqs" id="60827771%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-togglable="ENTRY" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-model-seqs/index.html">ModelSeqs</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="60827771%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><a href="-model-seqs/index.html">ModelSeqs</a></div></div><div class="brief "><p class="paragraph">???</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="1564601211%2FClasslikes%2F769193423" anchor-label="Companion" id="1564601211%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-companion/index.html"><span><span>Companion</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1564601211%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-companion/index.html">Companion</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="PROPERTY">
+        <h2 class="">Properties</h2>
+        <div class="table"><a data-name="-1394825463%2FProperties%2F769193423" anchor-label="command" id="-1394825463%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="command.html"><span><span>command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1394825463%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="command.html">command</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="436668772%2FProperties%2F769193423" anchor-label="entries" id="436668772%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="entries.html"><span><span>entries</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="436668772%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="entries.html">entries</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin.enums/-enum-entries/index.html">EnumEntries</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns a representation of an immutable list of all enum entries, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-372974862%2FProperties%2F769193423" anchor-label="name" id="-372974862%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423"><span><span>name</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-372974862%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-372974862%2FProperties%2F769193423">name</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-739389684%2FProperties%2F769193423" anchor-label="ordinal" id="-739389684%2FProperties%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423"><span><span>ordinal</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-739389684%2FProperties%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">val </span><a href="../../org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html#-739389684%2FProperties%2F769193423">ordinal</a><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-int/index.html">Int</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="-1377945928%2FFunctions%2F769193423" anchor-label="valueOf" id="-1377945928%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="value-of.html"><span>value</span><wbr><span><span>Of</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1377945928%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DiamondCommand</a></div><div class="brief "><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2140035644%2FFunctions%2F769193423" anchor-label="values" id="-2140035644%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="values.html"><span><span>values</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2140035644%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><div class="brief "><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html
new file mode 100644
index 00000000..c0becdd8
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>valueOf</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/value-of.html">v0.2.0</a><a href="value-of.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/valueOf/#kotlin.String/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">valueOf</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>value</span><wbr><span><span>Of</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="value-of.html"><span class="token function">valueOf</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">value<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="index.html">DiamondCommand</a></div><p class="paragraph">Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)</p><h4 class="">Throws</h4><div class="table"><div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main"><div class="main-subrow keyValue "><div class=""><span class="inline-flex"><div><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-illegal-argument-exception/index.html"><span>Illegal</span><wbr><span>Argument</span><wbr><span><span>Exception</span></span></a></div></span></div><div><div class="title"><p class="paragraph">if this enum type has no constant with the specified name</p></div></div></div></div></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html
new file mode 100644
index 00000000..9c913bb7
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>values</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/values.html">v0.2.0</a><a href="values.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand/values/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">DiamondCommand</a><span class="delimiter">/</span><span class="current">values</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>values</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="values.html"><span class="token function">values</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-array/index.html">Array</a><span class="token operator">&lt;</span><a href="index.html">DiamondCommand</a><span class="token operator">&gt;</span></div><p class="paragraph">Returns an array containing the constants of this enum type, in the order they're declared.</p><p class="paragraph">This method may be used to iterate over the constants.</p></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html
new file mode 100644
index 00000000..83a30479
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html
@@ -0,0 +1,88 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondExtras</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-extras/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondExtras///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondExtras</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr><span><span>Extras</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="index.html">DiamondExtras</a></div><p class="paragraph">Opt-in annotation for features that require the DIAMOND CLI tool to be compiled with extras enabled.</p><span class="kdoc-tag"><h4 class="">Since</h4><p class="paragraph">1.0.0</p></span></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"></div>
+    <div class="tabs-section-body"></div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html
new file mode 100644
index 00000000..aed884cd
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html
@@ -0,0 +1,88 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>DiamondHidden</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond-hidden/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/DiamondHidden///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">DiamondHidden</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>Diamond</span><wbr><span><span>Hidden</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="index.html">DiamondHidden</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"></div>
+    <div class="tabs-section-body"></div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html
new file mode 100644
index 00000000..e1250417
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastN</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-n.html">v0.2.0</a><a href="blast-n.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastN/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastN</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr><span><span>N</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html
new file mode 100644
index 00000000..b5f275c5
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastP</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-p.html">v0.2.0</a><a href="blast-p.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastP/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastP</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr><span><span>P</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html
new file mode 100644
index 00000000..7ef24030
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html
@@ -0,0 +1,84 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>blastX</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond/blast-x.html">v0.2.0</a><a href="blast-x.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="member" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/Diamond/blastX/#/PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><a href="index.html">Diamond</a><span class="delimiter">/</span><span class="current">blastX</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span>blast</span><wbr><span><span>X</span></span></h1>
+  </div>
+  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></div></div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html
new file mode 100644
index 00000000..a788f642
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html
@@ -0,0 +1,138 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>Diamond</title>
+    <link href="../../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../../styles/style.css" rel="Stylesheet">
+<link href="../../../styles/main.css" rel="Stylesheet">
+<link href="../../../styles/prism.css" rel="Stylesheet">
+<link href="../../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../../diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="classlike" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond/Diamond///PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../../index.html">diamondcli</a><span class="delimiter">/</span><a href="../index.html">org.veupathdb.lib.cli.diamond</a><span class="delimiter">/</span><span class="current">Diamond</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Diamond</span></span></h1>
+    <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="index.html">Diamond</a></div></div></div>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="CONSTRUCTOR,TYPE,PROPERTY,FUNCTION">Members</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="FUNCTION">
+        <h2 class="">Functions</h2>
+        <div class="table"><a data-name="1916409975%2FFunctions%2F769193423" anchor-label="blastN" id="1916409975%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-n.html"><span>blast</span><wbr><span><span>N</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1916409975%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div><div class="symbol monospace"><div class="block"><div class="block"><span class="token annotation builtin">@</span><a href="../-diamond-extras/index.html"><span class="token annotation builtin">DiamondExtras</span></a></div></div><span class="token keyword">fun </span><a href="blast-n.html"><span class="token function">blastN</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-n/index.html">BlastN</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="164774075%2FFunctions%2F769193423" anchor-label="blastP" id="164774075%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-p.html"><span>blast</span><wbr><span><span>P</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="164774075%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-p.html"><span class="token function">blastP</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-p/index.html">BlastP</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="1748165067%2FFunctions%2F769193423" anchor-label="blastX" id="1748165067%2FFunctions%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="blast-x.html"><span>blast</span><wbr><span><span>X</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="1748165067%2FFunctions%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><span data-unresolved-link="com.fasterxml.jackson.databind/JsonNode///PointingToDeclaration/">JsonNode</span></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://docs.oracle.com/javase/8/docs/api/java/io/InputStream.html">InputStream</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div><div class="symbol monospace"><span class="token keyword">fun </span><a href="blast-x.html"><span class="token function">blastX</span></a><span class="token punctuation">(</span><span class="parameters "><span class="parameter ">json<span class="token operator">: </span><a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-string/index.html">String</a></span></span><span class="token punctuation">)</span><span class="token operator">: </span><a href="../../org.veupathdb.lib.cli.diamond.commands/-blast-x/index.html">BlastX</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html
new file mode 100644
index 00000000..91fd3c0a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/org.veupathdb.lib.cli.diamond/index.html
@@ -0,0 +1,152 @@
+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>org.veupathdb.lib.cli.diamond</title>
+    <link href="../../images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "../../";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="../../scripts/sourceset_dependencies.js" async></script>
+<link href="../../styles/style.css" rel="Stylesheet">
+<link href="../../styles/main.css" rel="Stylesheet">
+<link href="../../styles/prism.css" rel="Stylesheet">
+<link href="../../styles/logo-styles.css" rel="Stylesheet">
+<link href="../../styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="../../scripts/clipboard.js" async></script>
+<script type="text/javascript" src="../../scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="../../scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="../../scripts/main.js" defer></script>
+<script type="text/javascript" src="../../scripts/prism.js" async></script>
+<script type="text/javascript" src="../../scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="../../styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="../../index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;diamondcli/org.veupathdb.lib.cli.diamond/index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../../../diamondcli/org.veupathdb.lib.cli.diamond/index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" data-page-type="package" id="content" pageids="diamondcli::org.veupathdb.lib.cli.diamond////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"><a href="../../index.html">diamondcli</a><span class="delimiter">/</span><span class="current">org.veupathdb.lib.cli.diamond</span></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>Package-level</span></span> <span><span>declarations</span></span></h1>
+  </div>
+  <div class="tabbedcontent">
+    <div class="tabs-section" tabs-section="tabs-section"><button class="section-tab" data-active="" data-togglable="TYPE">Types</button></div>
+    <div class="tabs-section-body">
+      <div data-togglable="TYPE">
+        <h2 class="">Types</h2>
+        <div class="table"><a data-name="336560318%2FClasslikes%2F769193423" anchor-label="Diamond" id="336560318%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond/index.html"><span><span>Diamond</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="336560318%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">object </span><a href="-diamond/index.html">Diamond</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-477232583%2FClasslikes%2F769193423" anchor-label="DiamondCommand" id="-477232583%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-command/index.html"><span>Diamond</span><wbr><span><span>Command</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-477232583%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">enum </span><a href="-diamond-command/index.html">DiamondCommand</a> : <a href="https://kotlinlang.org/api/latest/jvm/stdlib/kotlin/-enum/index.html">Enum</a><span class="token operator">&lt;</span><a href="-diamond-command/index.html">DiamondCommand</a><span class="token operator">&gt; </span></div><div class="brief "><p class="paragraph">Enum of DIAMOND commands.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-2111467045%2FClasslikes%2F769193423" anchor-label="DiamondExtras" id="-2111467045%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-extras/index.html"><span>Diamond</span><wbr><span><span>Extras</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2111467045%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="-diamond-extras/index.html">DiamondExtras</a></div><div class="brief "><p class="paragraph">Opt-in annotation for features that require the DIAMOND CLI tool to be compiled with extras enabled.</p></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+<a data-name="-765800332%2FClasslikes%2F769193423" anchor-label="DiamondHidden" id="-765800332%2FClasslikes%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+          <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+            <div class="main-subrow keyValue ">
+              <div class=""><span class="inline-flex">
+                  <div><a href="-diamond-hidden/index.html"><span>Diamond</span><wbr><span><span>Hidden</span></span></a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-765800332%2FClasslikes%2F769193423"></span>
+                    <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+                  </span></span></div>
+              <div>
+                <div class="title">
+                  <div class="platform-hinted " data-platform-hinted="data-platform-hinted"><div class="content sourceset-dependent-content" data-active="" data-togglable=":dokkaHtml/main"><div class="symbol monospace"><span class="token keyword">annotation class </span><a href="-diamond-hidden/index.html">DiamondHidden</a></div></div></div>
+                </div>
+              </div>
+            </div>
+          </div>
+        </div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/package-list b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/package-list
new file mode 100644
index 00000000..e4d919cc
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/diamondcli/package-list
@@ -0,0 +1,865 @@
+$dokka.format:html-v1
+$dokka.linkExtension:html
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+++ b/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/class-kotlin.svg
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+<!--
+  - Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+  -->
+
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+++ b/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/enum-kotlin.svg
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+  - Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
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+</svg>
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/enum.svg b/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/enum.svg
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+</svg>
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diff --git a/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/interface.svg b/docs/dokka/v0.2.0/older/v0.1.0/images/nav-icons/interface.svg
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+  - Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
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+
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+</g>
+</svg>
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+  -->
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+</svg>
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+  -->
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diff --git a/docs/dokka/v0.2.0/older/v0.1.0/index.html b/docs/dokka/v0.2.0/older/v0.1.0/index.html
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--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/index.html
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+<!doctype html>
+<html class="no-js">
+<head>
+    <meta name="viewport" content="width=device-width, initial-scale=1" charset="UTF-8">
+    <title>diamondcli</title>
+    <link href="images/logo-icon.svg" rel="icon" type="image/svg">
+    <script>var pathToRoot = "";</script>
+    <script>document.documentElement.classList.replace("no-js","js");</script>
+    <script>const storage = localStorage.getItem("dokka-dark-mode")
+    if (storage == null) {
+        const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+        if (osDarkSchemePreferred === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    } else {
+        const savedDarkMode = JSON.parse(storage)
+        if(savedDarkMode === true) {
+            document.getElementsByTagName("html")[0].classList.add("theme-dark")
+        }
+    }
+    </script>
+<script type="text/javascript" src="https://unpkg.com/kotlin-playground@1/dist/playground.min.js" async></script>
+<script type="text/javascript" src="scripts/sourceset_dependencies.js" async></script>
+<link href="styles/style.css" rel="Stylesheet">
+<link href="styles/main.css" rel="Stylesheet">
+<link href="styles/prism.css" rel="Stylesheet">
+<link href="styles/logo-styles.css" rel="Stylesheet">
+<link href="styles/font-jb-sans-auto.css" rel="Stylesheet">
+<script type="text/javascript" src="scripts/clipboard.js" async></script>
+<script type="text/javascript" src="scripts/navigation-loader.js" async></script>
+<script type="text/javascript" src="scripts/platform-content-handler.js" async></script>
+<script type="text/javascript" src="scripts/main.js" defer></script>
+<script type="text/javascript" src="scripts/prism.js" async></script>
+<script type="text/javascript" src="scripts/symbol-parameters-wrapper_deferred.js" defer></script>
+<link href="styles/multimodule.css" rel="Stylesheet">
+</head>
+<body>
+    <div class="root">
+<nav class="navigation" id="navigation-wrapper">
+    <div class="navigation--inner">
+        <div class="navigation-title">
+            <button class="menu-toggle" id="menu-toggle" type="button">toggle menu</button>
+            <div class="library-name">
+                    <a class="library-name--link" href="index.html">
+                            diamondcli
+                    </a>
+            </div>
+            <div class="library-version">
+<dokka-template-command data="{&quot;@class&quot;:&quot;org.jetbrains.dokka.base.templating.ReplaceVersionsCommand&quot;,&quot;location&quot;:&quot;index.html&quot;}"><div class="versions-dropdown">
+  <div class="versions-dropdown-button">v0.1.0</div>
+  <div class="versions-dropdown-data"><a href="../../index.html">v0.2.0</a><a href="index.html">v0.1.0</a></div>
+</div>
+</dokka-template-command>            </div>
+        </div>
+        <div class="filter-section" id="filter-section">
+                <button class="platform-tag platform-selector jvm-like" data-active="" data-filter=":dokkaHtml/main">jvm</button>
+        </div>
+    </div>
+    <div class="navigation-controls">
+        <button class="navigation-controls--btn navigation-controls--theme" id="theme-toggle-button" type="button">switch theme</button>
+        <div class="navigation-controls--btn navigation-controls--search" id="searchBar" role="button">search in API</div>
+    </div>
+</nav>
+        <div id="container">
+            <div class="sidebar" id="leftColumn">
+                <div class="sidebar--inner" id="sideMenu"></div>
+            </div>
+            <div id="main">
+<div class="main-content" id="content" pageids="diamondcli::////PointingToDeclaration//769193423">
+  <div class="breadcrumbs"></div>
+  <div class="cover ">
+    <h1 class="cover"><span><span>diamondcli</span></span></h1>
+  </div>
+  <h2 class="">Packages</h2>
+  <div class="table"><a data-name="-1723732976%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond" id="-1723732976%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond/index.html">org.veupathdb.lib.cli.diamond</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-1723732976%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="-2120229206%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.commands" id="-2120229206%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.commands/index.html">org.veupathdb.lib.cli.diamond.commands</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-2120229206%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="92425794%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.opts" id="92425794%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/index.html">org.veupathdb.lib.cli.diamond.opts</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="92425794%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="871341833%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.opts.output_format" id="871341833%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html">org.veupathdb.lib.cli.diamond.opts.output_format</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="871341833%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+<a data-name="-996466780%2FPackages%2F769193423" anchor-label="org.veupathdb.lib.cli.diamond.util" id="-996466780%2FPackages%2F769193423" data-filterable-set=":dokkaHtml/main"></a>
+    <div class="table-row" data-filterable-current=":dokkaHtml/main" data-filterable-set=":dokkaHtml/main">
+      <div>
+        <div class="main-subrow ">
+          <div class=""><span class="inline-flex">
+              <div><a href="diamondcli/org.veupathdb.lib.cli.diamond.util/index.html">org.veupathdb.lib.cli.diamond.util</a></div>
+<span class="anchor-wrapper"><span class="anchor-icon" pointing-to="-996466780%2FPackages%2F769193423"></span>
+                <div class="copy-popup-wrapper "><span class="copy-popup-icon"></span><span>Link copied to clipboard</span></div>
+              </span></span></div>
+          <div class="pull-right">
+            <div class="platform-tags no-gutters">
+              <div class="platform-tag jvm-like">jvm</div>
+            </div>
+          </div>
+        </div>
+        <div></div>
+      </div>
+    </div>
+  </div>
+</div>
+      <div class="footer">
+        <span class="go-to-top-icon"><a href="#content" id="go-to-top-link"></a></span><span>© 2024 Copyright</span><span class="pull-right"><span>Generated by </span><a href="https://github.com/Kotlin/dokka"><span>dokka</span><span class="padded-icon"></span></a></span>
+      </div>
+            </div>
+        </div>
+    </div>
+</body>
+</html>
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/navigation.html b/docs/dokka/v0.2.0/older/v0.1.0/navigation.html
new file mode 100644
index 00000000..c1c01f57
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/navigation.html
@@ -0,0 +1,1007 @@
+<html><head></head><body><div class="sideMenuPart" id="diamondcli-nav-submenu" pageid="diamondcli::////PointingToDeclaration//769193423">
+  <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="index.html"><span><span>diamondcli</span></span></a></div>
+  <div class="sideMenuPart" id="diamondcli-nav-submenu-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-0&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond/index.html"><span>org.</span><wbr><span>veupathdb.</span><wbr><span>lib.</span><wbr><span>cli.</span><wbr><span>diamond</span></a></div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-0-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond/Diamond///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Diamond</span></span></span></span></a></div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-0-1&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Diamond</span><wbr><span><span>Command</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.MakeDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-make-d-b/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Make</span><wbr><span><span>DB</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-0-1-2" pageid="diamondcli::org.veupathdb.lib.cli.diamond/DiamondCommand.PrepDB///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/-prep-d-b/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Prep</span><wbr><span><span>DB</span></span></span></span></a></div>
+      </div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/-amino-acid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Amino</span><wbr><span><span>Acid</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-34-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.None///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-none/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>None</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-tantan/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Tantan</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-34-4" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/SoftMaskingAlgorithm.Motif///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/-motif/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Motif</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-standard/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Standard</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-2" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.VertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-vertebrate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Vertebrate</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-yeast-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Yeast</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mold-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Mold</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-protozoan-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Protozoan</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-6" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CoelenterateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-coelenterate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Coelenterate</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-7" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Mycoplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-mycoplasma/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Mycoplasma</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-8" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Spiroplasma///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-spiroplasma/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Spiroplasma</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-9" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.InvertebrateMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-invertebrate-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Invertebrate</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-10" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CiliateNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ciliate-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ciliate</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-11" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.DasycladaceanNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-dasycladacean-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Dasycladacean</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-12" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.HexamitaNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-hexamita-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Hexamita</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-13" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EchinodermMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-echinoderm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Echinoderm</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-14" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.FlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-flatworm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Flatworm</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-15" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.EuplotidNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-euplotid-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Euplotid</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-16" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.BacterialPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-bacterial-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Bacterial</span><wbr><span><span>Plastid</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-17" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ArchaealPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-archaeal-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Archaeal</span><wbr><span><span>Plastid</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-18" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PlantPlastid///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-plant-plastid/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Plant</span><wbr><span><span>Plastid</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-19" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeYeastNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-yeast-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alternative</span><wbr><span>Yeast</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-20" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AscidianMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-ascidian-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ascidian</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-21" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.AlternativeFlatwormMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-alternative-flatworm-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alternative</span><wbr><span>Flatworm</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-22" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ChlorophyceanMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-chlorophycean-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Chlorophycean</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-23" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.TrematodeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-trematode-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Trematode</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-24" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ScenedesmusObliquusMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-scenedesmus-obliquus-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Scenedesmus</span><wbr><span>Obliquus</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-25" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.ThraustochytriumMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-thraustochytrium-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Thraustochytrium</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-26" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.RhabdopleuridaeMitochondrial///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-rhabdopleuridae-mitochondrial/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Rhabdopleuridae</span><wbr><span><span>Mitochondrial</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-27" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.CandidateDivisionSR1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-candidate-division-s-r1/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Candidate</span><wbr><span>Division</span><wbr><span><span>SR1</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-28" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.Gracilibacteria///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-gracilibacteria/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Gracilibacteria</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-2-35-29" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/TranslatorGenCode.PachysolenTannophilusNuclear///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/-pachysolen-tannophilus-nuclear/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Pachysolen</span><wbr><span>Tannophilus</span><wbr><span><span>Nuclear</span></span></span></span></a></div>
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+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-2-36" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts/ViewAlignOptionContainer///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts/-view-align-option-container/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon interface-kt"></span><span class="nav-link-child"><span>View</span><wbr><span>Align</span><wbr><span>Option</span><wbr><span><span>Container</span></span></span></span></a></div>
+    </div>
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+  <div class="sideMenuPart" id="diamondcli-nav-submenu-3" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/index.html"><span>org.</span><wbr><span>veupathdb.</span><wbr><span>lib.</span><wbr><span>cli.</span><wbr><span>diamond.</span><wbr><span>opts.</span><wbr><span><span>output_format</span></span></a></div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormat///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr><span>Tab</span><wbr><span><span>Format</span></span></span></span></a></div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatBase///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-base/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Base</span></span></span></span></a></div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3-2&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr><span>Tab</span><wbr><span>Format</span><wbr><span><span>Field</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-i-d/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>ID</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-2" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-g-i/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>GI</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-3" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>Accesion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-4" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-accesion-version/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Accesion</span><wbr><span><span>Version</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-5" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Length</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-6" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceID///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-i-d/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>ID</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-7" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectSequenceIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-sequence-i-ds/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>IDs</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-8" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectGI///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-g-i/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>GI</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-9" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectGIs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-g-is/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr><span>Subject</span><wbr><span><span>GIs</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-10" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAccesion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Accesion</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-11" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAccesionVersion///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-accesion-version/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Accesion</span><wbr><span><span>Version</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-12" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectAccesions///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-accesions/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr><span>Subject</span><wbr><span><span>Accesions</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-13" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>Length</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-14" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-start/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Alignment</span><wbr><span><span>Start</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-15" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-alignment-end/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Alignment</span><wbr><span><span>End</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-16" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAlignmentStart///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-start/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Alignment</span><wbr><span><span>Start</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-17" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectAlignmentEnd///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-alignment-end/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Alignment</span><wbr><span><span>End</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-18" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr><span>Query</span><wbr><span><span>Sequence</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-19" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-subject-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr><span>Subject</span><wbr><span><span>Sequence</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-20" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.ExpectValue///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-expect-value/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Expect</span><wbr><span><span>Value</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-21" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.BitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-bit-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Bit</span><wbr><span><span>Score</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-22" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.RawScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-raw-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Raw</span><wbr><span><span>Score</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-23" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignmentLength///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-alignment-length/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Alignment</span><wbr><span><span>Length</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-24" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PercentIdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-identical-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Percent</span><wbr><span>Identical</span><wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-25" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.IdenticalMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-identical-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Identical</span><wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-26" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Mismatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-mismatches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Mismatches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-27" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-positive-scoring-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Positive</span><wbr><span>Scoring</span><wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-28" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.GapOpenings///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-gap-openings/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Gap</span><wbr><span><span>Openings</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-29" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.TotalGaps///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-total-gaps/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Total</span><wbr><span><span>Gaps</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-30" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PercentPositiveScoringMatches///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-percent-positive-scoring-matches/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Percent</span><wbr><span>Positive</span><wbr><span>Scoring</span><wbr><span><span>Matches</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-31" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Frames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-frames/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Frames</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-32" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-frame/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>Frame</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-33" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectFrame///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-frame/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Frame</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-34" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.BlastTracebackOperations///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-blast-traceback-operations/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr><span>Traceback</span><wbr><span><span>Operations</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-35" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectTaxonomyIDs///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-taxonomy-i-ds/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Taxonomy</span><wbr><span><span>IDs</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-36" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectScientificNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-scientific-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Scientific</span><wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-37" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectCommonNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-common-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Common</span><wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-38" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectBlastNames///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-blast-names/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Blast</span><wbr><span><span>Names</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-39" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSuperKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-super-kingdoms/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Super</span><wbr><span><span>Kingdoms</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-40" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-title/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Title</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-41" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AllSubjectTitles///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-all-subject-titles/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>All</span><wbr><span>Subject</span><wbr><span><span>Titles</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-42" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-strand/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Strand</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-43" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-subject/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>Subject</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-44" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-h-s-p/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>HSP</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-45" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryCoveragePerUniqueSubject///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-coverage-per-unique-subject/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span>Unique</span><wbr><span><span>Subject</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-46" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryTitle///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-title/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>Title</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-47" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SWDiff///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-s-w-diff/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>SWDiff</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-48" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Time///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-time/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Time</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-49" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullSubjectSequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-subject-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr><span>Subject</span><wbr><span><span>Sequence</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-50" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.AlignedQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-aligned-query-quality-values/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Aligned</span><wbr><span>Query</span><wbr><span>Quality</span><wbr><span><span>Values</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-51" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>Num</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-52" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Num</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-53" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectCoveragePerHSP///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-coverage-per-h-s-p/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Coverage</span><wbr><span>Per</span><wbr><span><span>HSP</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-54" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQueryQualityValues///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-quality-values/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr><span>Query</span><wbr><span>Quality</span><wbr><span><span>Values</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-55" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQuerySequence///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr><span>Query</span><wbr><span><span>Sequence</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-56" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-gapped/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Gapped</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-57" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectSequenceGapped///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-sequence-gapped/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span>Sequence</span><wbr><span><span>Gapped</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-58" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QueryStrand///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-strand/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span><span>Strand</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-59" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.CIGAR///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-c-i-g-a-r/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>CIGAR</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-60" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectKingdoms///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-kingdoms/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Kingdoms</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-61" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectPhylums///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-phylums/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Phylums</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-62" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.UngappedScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-ungapped-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Ungapped</span><wbr><span><span>Score</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-63" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.FullQuerySequenceOfMate///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-full-query-sequence-of-mate/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Full</span><wbr><span>Query</span><wbr><span>Sequence</span><wbr><span>Of</span><wbr><span><span>Mate</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-64" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.QuerySequenceTranslated///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-query-sequence-translated/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Query</span><wbr><span>Sequence</span><wbr><span><span>Translated</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-65" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.ReducedMatchBitString///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reduced-match-bit-string/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Reduced</span><wbr><span>Match</span><wbr><span>Bit</span><wbr><span><span>String</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-66" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NormalizedBitScoreSemiglobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-semiglobal/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Normalized</span><wbr><span>Bit</span><wbr><span>Score</span><wbr><span><span>Semiglobal</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-67" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.HSPNum///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-h-s-p-num/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>HSPNum</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-68" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NormalizedBitScoreGlobal///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-normalized-bit-score-global/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Normalized</span><wbr><span>Bit</span><wbr><span>Score</span><wbr><span><span>Global</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-69" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.PIDENT_GLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-p-i-d-e-n-t_-g-l-o-b-a-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>PIDENT_GLOBAL</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-70" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.EXT_COUNT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-e-x-t_-c-o-u-n-t/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>EXT_COUNT</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-71" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NW_SEMIGLOBAL///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-w_-s-e-m-i-g-l-o-b-a-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>NW_SEMIGLOBAL</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-72" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.APPROX_PIDENT///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-a-p-p-r-o-x_-p-i-d-e-n-t/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>APPROX_PIDENT</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-73" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.CorrectedBitScore///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-corrected-bit-score/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Corrected</span><wbr><span>Bit</span><wbr><span><span>Score</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-74" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.NEG_EVALUE///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-n-e-g_-e-v-a-l-u-e/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>NEG_EVALUE</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-75" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Reserved1///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved1/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Reserved1</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-76" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.Reserved2///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-reserved2/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Reserved2</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-2-77" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/BlastTabFormatField.SubjectLineages///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-blast-tab-format-field/-subject-lineages/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Subject</span><wbr><span><span>Lineages</span></span></span></span></a></div>
+      </div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-3" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/JsonFlatFormat///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-json-flat-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Json</span><wbr><span>Flat</span><wbr><span><span>Format</span></span></span></span></a></div>
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+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3-4&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Output</span><wbr><span><span>Format</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Pairwise///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-pairwise/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Pairwise</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-1" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.XML///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-x-m-l/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>XML</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-2" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.BlastTab///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-blast-tab/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Blast</span><wbr><span><span>Tab</span></span></span></span></a></div>
+      </div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-3" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.DiamondAlignmentArchive///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-diamond-alignment-archive/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span>Diamond</span><wbr><span>Alignment</span><wbr><span><span>Archive</span></span></span></span></a></div>
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+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-4-10" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormat.Clustering///PointingToDeclaration/{&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;:{&quot;key&quot;:&quot;org.jetbrains.dokka.links.EnumEntryDRIExtra&quot;}}/769193423">
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+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/-edge/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon enum-class-kt"></span><span class="nav-link-child"><span><span>Edge</span></span></span></span></a></div>
+      </div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-5" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/OutputFormatOptions///PointingToDeclaration//769193423">
+      <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format-options/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon interface-kt"></span><span class="nav-link-child"><span>Output</span><wbr><span>Format</span><wbr><span><span>Options</span></span></span></span></a></div>
+    </div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-3-6" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat///PointingToDeclaration//769193423">
+      <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-3-6&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon class-kt"></span><span class="nav-link-child"><span>Simple</span><wbr><span>Output</span><wbr><span><span>Format</span></span></span></span></a></div>
+      <div class="sideMenuPart" id="diamondcli-nav-submenu-3-6-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond.opts.output_format/SimpleOutputFormat.Companion///PointingToDeclaration//769193423">
+        <div class="overview"><a href="diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/-companion/index.html"><span class="nav-link-grid"><span class="nav-link-child nav-icon object"></span><span class="nav-link-child"><span><span>Companion</span></span></span></span></a></div>
+      </div>
+    </div>
+  </div>
+  <div class="sideMenuPart" id="diamondcli-nav-submenu-4" pageid="diamondcli::org.veupathdb.lib.cli.diamond.util////PointingToDeclaration//769193423">
+    <div class="overview"><span class="navButton" onclick="document.getElementById(&quot;diamondcli-nav-submenu-4&quot;).classList.toggle(&quot;hidden&quot;);"><span class="navButtonContent"></span></span><a href="diamondcli/org.veupathdb.lib.cli.diamond.util/index.html"><span>org.</span><wbr><span>veupathdb.</span><wbr><span>lib.</span><wbr><span>cli.</span><wbr><span>diamond.</span><wbr><span>util</span></a></div>
+    <div class="sideMenuPart" id="diamondcli-nav-submenu-4-0" pageid="diamondcli::org.veupathdb.lib.cli.diamond.util/CliEnum///PointingToDeclaration//769193423">
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+    </div>
+  </div>
+</div>
+
+</body></html>
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diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/clipboard.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/clipboard.js
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--- /dev/null
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+/*
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+ */
+
+window.addEventListener('load', () => {
+    document.querySelectorAll('span.copy-icon').forEach(element => {
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+                copyTextToClipboard(element, location)
+            }
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+
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+    const selection = window.getSelection();
+    const range = document.createRange();
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+
+    copyAndShowPopup(element,  () => selection.removeAllRanges())
+}
+
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+    var textarea = document.createElement("textarea");
+    textarea.textContent = text;
+    textarea.style.position = "fixed";
+    document.body.appendChild(textarea);
+    textarea.select();
+
+    copyAndShowPopup(element, () => document.body.removeChild(textarea))
+}
+
+const copyAndShowPopup = (element, after) => {
+    try {
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+        element.nextElementSibling.classList.add('active-popup');
+        setTimeout(() => {
+            element.nextElementSibling.classList.remove('active-popup');
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+    } catch (e) {
+        console.error('Failed to write to clipboard:', e)
+    }
+    finally {
+        if(after) after()
+    }
+}
+
+const hrefWithoutCurrentlyUsedAnchor = () => window.location.href.split('#')[0]
+
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/main.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/main.js
new file mode 100644
index 00000000..ba6c3473
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+/*!
+  Copyright (c) 2018 Jed Watson.
+  Licensed under the MIT License (MIT), see
+  http://jedwatson.github.io/classnames
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position: relative;\n  z-index: 0;\n\n  display: inline-block;\n\n  white-space: nowrap;\n}\n\n.buttonGroup button,\n.buttonGroup .button {\n  margin: 0 0 0 -1px;\n\n  border-radius: 0;\n}\n\n.caption {\n  composes: font from "../global/global.css";\n\n  margin-right: unit;\n\n  font-size: var(--ring-font-size);\n\n  &:empty {\n    margin-right: 0;\n  }\n}\n\n.buttonGroup > .caption + .button,\n.buttonGroup > button:first-child,\n.buttonGroup > .button:first-child,\n.buttonGroup > :first-child .button {\n  margin: 0;\n\n  border-top-left-radius: var(--ring-border-radius);\n  border-bottom-left-radius: var(--ring-border-radius);\n}\n\n.buttonGroup > .button:last-child,\n.buttonGroup > button:last-child,\n.buttonGroup > :last-child .button {\n  border-top-right-radius: var(--ring-border-radius);\n  border-bottom-right-radius: var(--ring-border-radius);\n}\n\n.buttonGroup {\n  & .button {\n    position: relative;\n    z-index: var(--ring-button-group-default-z-index);\n\n    &[disabled] {\n      z-index: var(--ring-button-group-disabled-z-index);\n    }\n\n    &:active {\n      z-index: var(--ring-button-group-active-z-index);\n    }\n\n    &:hover {\n      z-index: var(--ring-button-group-hover-z-index);\n    }\n\n    &:focus {\n      z-index: var(--ring-button-group-focus-z-index);\n    }\n  }\n\n  & .active {\n    z-index: var(--ring-button-group-active-z-index);\n  }\n}\n',null],sourceRoot:""}]),s.locals={unit:""+l.default.locals.unit,buttonGroup:"buttonGroup_fbe4 "+c.Z.locals.buttonGroup,button:"button_ea9a",caption:"caption_c8e1 "+l.default.locals.font,active:"active_be1c"};const f=s},135:(e,n,t)=>{"use strict";t.d(n,{Z:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".buttonSet_f415 {\n  position: relative;\n\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0\n}\n\n.buttonSet_f415 .button_f403 {\n    margin: 0 8px 0 0;\n  }\n\n.buttonSet_f415 > .button_f403:last-child {\n    margin-right: 0;\n  }\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button-set/button-set.css"],names:[],mappings:"AAIA;EACE,kBAAkB;;EAElB,qBAAqB;;EAErB,mBAAmB;;EAEnB;AASF;;AAPE;IACE,iBAAkB;EACpB;;AAEA;IACE,eAAe;EACjB",sourcesContent:['@import "../global/variables.css";\n\n@value unit from "../global/global.css";\n\n.buttonSet {\n  position: relative;\n\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n\n  & .button {\n    margin: 0 unit 0 0;\n  }\n\n  & > .button:last-child {\n    margin-right: 0;\n  }\n}\n'],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,buttonSet:"buttonSet_f415",button:"button_f403"};const s=u},9131:(e,n,t)=>{"use strict";t.d(n,{Z:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".buttonToolbar_f09a {\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n}\n\n.buttonToolbar_f09a > button,\n.buttonToolbar_f09a > .ring-button-group,\n.buttonToolbar_f09a > .button_fc1d,\n.buttonToolbar_f09a > .buttonGroup_c55b,\n.buttonToolbar_f09a > .buttonToolbar_f09a {\n  margin-right: 8px;\n}\n\n.buttonToolbar_f09a > :last-child {\n  margin-right: 0;\n}\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button-toolbar/button-toolbar.css"],names:[],mappings:"AAIA;EACE,qBAAqB;;EAErB,mBAAmB;;EAEnB,YAAY;AACd;;AAEA;;;;;EAKE,iBAAkB;AACpB;;AAEA;EACE,eAAe;AACjB",sourcesContent:['@import "../global/variables.css";\n\n@value unit from "../global/global.css";\n\n.buttonToolbar {\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n}\n\n.buttonToolbar > button,\n.buttonToolbar > :global(.ring-button-group),\n.buttonToolbar > .button,\n.buttonToolbar > .buttonGroup,\n.buttonToolbar > .buttonToolbar {\n  margin-right: unit;\n}\n\n.buttonToolbar > :last-child {\n  margin-right: 0;\n}\n'],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,buttonToolbar:"buttonToolbar_f09a",button:"button_fc1d",buttonGroup:"buttonGroup_c55b"};const s=u},8199:(e,n,t)=>{"use strict";t.r(n),t.d(n,{default:()=>d});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(5469),u=t(135),s=t(9131),f=t(3181),p=a()(o());p.i(f.Z),p.i(l.default,"",!0),p.i(c.Z,"",!0),p.i(u.Z,"",!0),p.i(s.Z,"",!0),p.push([e.id,':root {\n  /* TODO: This colors are not ready to move to variables.css */\n  /* stylelint-disable color-no-hex */\n  --ring-button-primary-background-color: #1a98ff;\n  --ring-button-primary-border-color: #0062b2;\n  --ring-button-danger-active-color: #ffe7e8;\n  --ring-button-danger-hover-color: var(--ring-icon-error-color);\n  --ring-button-loader-background: #33a3ff;\n  --ring-button-dark-icon-color: #80929d;\n  --ring-button-dark-border-disabled-color: #333;\n  --ring-button-dark-icon-disabled-color: var(--ring-dark-disabled-color);\n  --ring-button-dark-danger-active-color: #26080a;\n  --ring-button-dark-danger-hover-color: var(--ring-error-color);\n  --ring-button-dark-active-color: #062640;\n  --ring-button-dark-loader-background: #002039;\n  /* stylelint-enable color-no-hex */\n}\n\n.light_b3b0 {\n  color: var(--ring-text-color);\n  background-color: var(--ring-content-background-color);\n  box-shadow: inset 0 0 0 1px var(--ring-borders-color)\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.light_b3b0:hover {\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }}\n\n.light_b3b0:active,\n  .light_b3b0.active_bbe6 {\n    background-color: var(--ring-selected-background-color);\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.light_b3b0.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color), 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.light_b3b0[disabled] {\n    box-shadow: inset 0 0 0 1px var(--ring-border-disabled-color);\n  }\n\n.light_b3b0[disabled],\n  .light_b3b0[disabled].withIcon_ef77 {\n    color: var(--ring-disabled-color);\n  }\n\n.light_b3b0[disabled] .icon_e878 {\n    color: var(--ring-icon-disabled-color);\n  }\n\n.light_b3b0.primary_ddae:active,\n  .light_b3b0.primary_ddae.active_bbe6 {\n    background-color: #1a98ff;\n    background-color: var(--ring-button-primary-background-color);\n    box-shadow: inset 0 0 0 1px #0062b2;\n    box-shadow: inset 0 0 0 1px var(--ring-button-primary-border-color);\n  }\n\n.light_b3b0.danger_bcea:active,\n  .light_b3b0.danger_bcea.active_bbe6 {\n    background-color: #ffe7e8;\n    background-color: var(--ring-button-danger-active-color);\n  }\n\n.light_b3b0.danger_bcea:active,\n  .light_b3b0.danger_bcea.active_bbe6,\n  .light_b3b0.danger_bcea.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-icon-error-color);\n    box-shadow: inset 0 0 0 1px var(--ring-button-danger-hover-color);\n  }\n\n.light_b3b0.withIcon_ef77 {\n    color: var(--ring-secondary-color);\n  }\n\n.light_b3b0 .loaderBackground_d9f5::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-content-background-color),\n        var(--ring-selected-background-color) 40%,\n        var(--ring-content-background-color) 80%\n      );\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.light_b3b0.danger_bcea:hover {\n  box-shadow: inset 0 0 0 1px var(--ring-icon-error-color);\n  box-shadow: inset 0 0 0 1px var(--ring-button-danger-hover-color);\n}}\n\n.dark_e616 {\n  color: var(--ring-dark-secondary-color);\n  background-color: var(--ring-navigation-background-color);\n  box-shadow: inset 0 0 0 1px var(--ring-dark-borders-color)\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.dark_e616:hover {\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color);\n  }}\n\n.dark_e616:active,\n  .dark_e616.active_bbe6 {\n    color: var(--ring-dark-text-color);\n    background-color: #062640;\n    background-color: var(--ring-button-dark-active-color);\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n.dark_e616.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color), 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n.dark_e616[disabled] {\n    box-shadow: inset 0 0 0 1px #333;\n    box-shadow: inset 0 0 0 1px var(--ring-button-dark-border-disabled-color);\n  }\n\n.dark_e616[disabled],\n  .dark_e616[disabled].withIcon_ef77 {\n    color: var(--ring-dark-disabled-color);\n  }\n\n.dark_e616[disabled] .icon_e878 {\n    color: var(--ring-dark-disabled-color);\n    color: var(--ring-button-dark-icon-disabled-color);\n  }\n\n.dark_e616.primary_ddae:active,\n  .dark_e616.primary_ddae.active_bbe6 {\n    background-color: var(--ring-main-hover-color);\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6 {\n    color: var(--ring-icon-error-color);\n    background-color: #26080a;\n    background-color: var(--ring-button-dark-danger-active-color);\n  }\n\n.dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6,\n  .dark_e616.danger_bcea.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-error-color);\n    box-shadow: inset 0 0 0 1px var(--ring-button-dark-danger-hover-color);\n  }\n\n.dark_e616.withIcon_ef77 {\n    color: var(--ring-dark-secondary-color);\n  }\n\n.dark_e616 .loaderBackground_d9f5::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        #002039 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        var(--ring-button-dark-loader-background) 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n  }\n\n.dark_e616 .dropdownIcon_e982 {\n    color: var(--ring-dark-secondary-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.dark_e616.danger_bcea:hover {\n  box-shadow: inset 0 0 0 1px var(--ring-error-color);\n  box-shadow: inset 0 0 0 1px var(--ring-button-dark-danger-hover-color);\n}}\n\n.button_aba4 {\n\n  position: relative;\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  height: 24px;\n  margin: 0;\n  padding: 0 16px;\n\n  cursor: pointer;\n  transition: color var(--ring-ease), background-color var(--ring-ease), box-shadow var(--ring-ease);\n  text-decoration: none;\n\n  border: 0;\n  border-radius: var(--ring-border-radius);\n  outline: 0;\n\n  font-family: var(--ring-font-family);\n  font-size: var(--ring-font-size-smaller);\n\n  line-height: 24px\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.button_aba4:hover {\n    transition: none;\n  }}\n\n.button_aba4.focus-visible {\n    transition: none;\n  }\n\n.button_aba4[disabled] {\n    pointer-events: none;\n  }\n\n.button_aba4::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n    outline: 0;\n  }\n\n.active_bbe6 {\n}\n\n.primary_ddae {\n  color: var(--ring-dark-text-color);\n  background-color: var(--ring-main-color);\n  box-shadow: none\n}\n\n.primary_ddae.withIcon_ef77,\n  .primary_ddae.withIcon_ef77:active,\n  .primary_ddae.withIcon_ef77.active_bbe6 {\n    color: var(--ring-main-color);\n  }\n\n.primary_ddae.focus-visible {\n    transition: none;\n\n    background-color: var(--ring-main-hover-color);\n    box-shadow: none;\n  }\n\n.primary_ddae[disabled] {\n    background-color: var(--ring-content-background-color);\n    box-shadow: inset 0 0 0 1px var(--ring-borders-color);\n  }\n\n.primary_ddae[disabled].loader_cbfc {\n    color: var(--ring-dark-text-color);\n  }\n\n.primary_ddae .loaderBackground_d9f5 {\n    top: 0;\n    right: 0;\n    bottom: 0;\n    left: 0;\n\n    border-radius: var(--ring-border-radius)\n  }\n\n.primary_ddae .loaderBackground_d9f5::before {\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          #33a3ff 40%,\n          var(--ring-main-color) 80%\n        );\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          var(--ring-button-loader-background) 40%,\n          var(--ring-main-color) 80%\n        );\n    }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.primary_ddae:hover {\n  transition: none;\n\n  background-color: var(--ring-main-hover-color);\n  box-shadow: none;\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.danger_bcea:hover {\n    transition: none;\n  }}\n\n.danger_bcea,\n  .danger_bcea.withIcon_ef77,\n  .danger_bcea.withIcon_ef77:active,\n  .danger_bcea.withIcon_ef77.active_bbe6,\n  .danger_bcea.text_fc2a,\n  .danger_bcea.text_fc2a:active,\n  .danger_bcea.text_fc2a.active_bbe6 {\n    color: var(--ring-error-color);\n  }\n\n.danger_bcea.focus-visible {\n    transition: none;\n  }\n\n.dark_e616.danger_bcea,\n  .dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6 {\n    color: var(--ring-icon-error-color);\n  }\n\n.text_fc2a.text_fc2a,\n.withIcon_ef77.withIcon_ef77 {\n  background-color: transparent;\n  box-shadow: none\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77):hover {\n    transition: none;\n  }}\n\n:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77):active,\n  :is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77).active_bbe6 {\n    background-color: transparent;\n    box-shadow: none;\n  }\n\n:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77).focus-visible {\n    box-shadow: inset 0 0 0 2px var(--ring-border-hover-color);\n  }\n\n.loader_cbfc.text_fc2a > .content_b2b8 {\n  -webkit-animation-name: text-loading_d1b4;\n          animation-name: text-loading_d1b4;\n  -webkit-animation-duration: 1200ms;\n          animation-duration: 1200ms;\n  -webkit-animation-iteration-count: infinite;\n          animation-iteration-count: infinite;\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.text_fc2a.text_fc2a:hover {\n  background-color: transparent;\n  box-shadow: none;\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withIcon_ef77:hover:not(.focus-visible) {\n  background-color: transparent;\n  box-shadow: none;\n}}\n\n.text_fc2a {\n  color: var(--ring-main-color);\n}\n\n.inline_b4a2 {\n  display: inline-block;\n\n  margin: 0;\n  padding: 0;\n\n  font-size: var(--ring-font-size);\n}\n\n.withIcon_ef77 {\n  padding: 0 8px;\n}\n\n.text_fc2a:active,\n  .text_fc2a.active_bbe6 {\n    color: var(--ring-link-hover-color);\n  }\n\n.withIcon_ef77:active,\n  .withIcon_ef77.active_bbe6 {\n    color: var(--ring-main-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withIcon_ef77:hover {\n  color: var(--ring-link-hover-color);\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.text_fc2a:hover {\n  color: var(--ring-link-hover-color);\n}}\n\n.icon_e878 {\n  color: inherit;\n\n  line-height: normal\n}\n\n.icon_e878:not(:last-child) {\n    margin-right: 4px;\n  }\n\n.withNormalIconLight_d71b .icon_e878 {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-color);\n}\n\n.withNormalIconDark_a9e5 .icon_e878 {\n  transition: color var(--ring-ease);\n\n  color: #80929d;\n\n  color: var(--ring-button-dark-icon-color);\n}\n\n.withNormalIconLight_d71b:active,\n.withNormalIconLight_d71b.active_bbe6,\n.withNormalIconDark_a9e5:active,\n.withNormalIconDark_a9e5.active_bbe6 {\n  color: var(--ring-main-color)\n}\n\n:is(.withNormalIconLight_d71b:active,.withNormalIconLight_d71b.active_bbe6,.withNormalIconDark_a9e5:active,.withNormalIconDark_a9e5.active_bbe6) .icon_e878 {\n    transition: none;\n\n    color: inherit;\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withNormalIconLight_d71b:hover .icon_e878,\n.withNormalIconDark_a9e5:hover .icon_e878,\n.withDangerIconLight_c37c:hover .icon_e878,\n.withDangerIconDark_e5a4:hover .icon_e878 {\n  transition: none;\n\n  color: inherit;\n}}\n\n.withDangerIconLight_c37c .icon_e878,\n.withDangerIconLight_c37c:active .icon_e878 {\n  color: var(--ring-icon-error-color);\n}\n\n.withDangerIconDark_e5a4 .icon_e878,\n.withDangerIconDark_e5a4:active .icon_e878 {\n  color: var(--ring-error-color);\n}\n\n.loader_cbfc {\n  position: relative;\n  z-index: 0;\n\n  pointer-events: none;\n\n  background-color: transparent;\n}\n\n.loaderBackground_d9f5 {\n  position: absolute;\n  z-index: -1;\n  top: 1px;\n  right: 1px;\n  bottom: 1px;\n  left: 1px;\n\n  overflow: hidden;\n\n  border-radius: var(--ring-border-radius-small)\n}\n\n.loaderBackground_d9f5::before {\n    display: block;\n\n    width: calc(100% + 64px);\n    height: 100%;\n\n    content: "";\n    -webkit-animation: progress_ed8f 1s linear infinite;\n            animation: progress_ed8f 1s linear infinite;\n\n    background-repeat: repeat;\n    background-size: 64px;\n  }\n\n.delayed_d562 .content_b2b8::after {\n  content: "…";\n}\n\n.short_a07a {\n  width: 32px;\n  padding: 0;\n}\n\n.dropdownIcon_e982 {\n  margin-right: -2px;\n\n  margin-left: 2px;\n\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-secondary-color);\n\n  line-height: normal;\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.button_aba4:hover .dropdownIcon_e982 {\n  transition: none;\n\n  color: var(--ring-main-color);\n}}\n\n@-webkit-keyframes progress_ed8f {\n  from {\n    transform: translateX(-64px);\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@keyframes progress_ed8f {\n  from {\n    transform: translateX(-64px);\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@-webkit-keyframes text-loading_d1b4 {\n  50% {\n    opacity: 0.5;\n  }\n}\n\n@keyframes text-loading_d1b4 {\n  50% {\n    opacity: 0.5;\n  }\n}\n',"",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button/button.css","<no 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"../global/variables.css";\n\n@value unit from "../global/global.css";\n@value button-shadow: inset 0 0 0 1px;\n@value height: calc(unit * 3);\n@value loaderWidth: calc(unit * 8);\n\n:root {\n  /* TODO: This colors are not ready to move to variables.css */\n  /* stylelint-disable color-no-hex */\n  --ring-button-primary-background-color: #1a98ff;\n  --ring-button-primary-border-color: #0062b2;\n  --ring-button-danger-active-color: #ffe7e8;\n  --ring-button-danger-hover-color: var(--ring-icon-error-color);\n  --ring-button-loader-background: #33a3ff;\n  --ring-button-dark-icon-color: #80929d;\n  --ring-button-dark-border-disabled-color: #333;\n  --ring-button-dark-icon-disabled-color: var(--ring-dark-disabled-color);\n  --ring-button-dark-danger-active-color: #26080a;\n  --ring-button-dark-danger-hover-color: var(--ring-error-color);\n  --ring-button-dark-active-color: #062640;\n  --ring-button-dark-loader-background: #002039;\n  /* stylelint-enable color-no-hex */\n}\n\n.light {\n  color: var(--ring-text-color);\n  background-color: var(--ring-content-background-color);\n  box-shadow: button-shadow var(--ring-borders-color);\n\n  &:hover {\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &:active,\n  &.active {\n    background-color: var(--ring-selected-background-color);\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-border-hover-color), 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n  &[disabled] {\n    box-shadow: button-shadow var(--ring-border-disabled-color);\n  }\n\n  &[disabled],\n  &[disabled].withIcon {\n    color: var(--ring-disabled-color);\n  }\n\n  &[disabled] .icon {\n    color: var(--ring-icon-disabled-color);\n  }\n\n  &.primary:active,\n  &.primary.active {\n    background-color: var(--ring-button-primary-background-color);\n    box-shadow: button-shadow var(--ring-button-primary-border-color);\n  }\n\n  &.danger:active,\n  &.danger.active {\n    background-color: var(--ring-button-danger-active-color);\n  }\n\n  &.danger:active,\n  &.danger.active,\n  &.danger:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-button-danger-hover-color);\n  }\n\n  &.withIcon {\n    color: var(--ring-secondary-color);\n  }\n\n  & .loaderBackground::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-content-background-color),\n        var(--ring-selected-background-color) 40%,\n        var(--ring-content-background-color) 80%\n      );\n  }\n}\n\n.light.danger:hover {\n  box-shadow: button-shadow var(--ring-button-danger-hover-color);\n}\n\n.dark {\n  color: var(--ring-dark-secondary-color);\n  background-color: var(--ring-navigation-background-color);\n  box-shadow: button-shadow var(--ring-dark-borders-color);\n\n  &:hover {\n    box-shadow: button-shadow var(--ring-dark-border-hover-color);\n  }\n\n  &:active,\n  &.active {\n    color: var(--ring-dark-text-color);\n    background-color: var(--ring-button-dark-active-color);\n    box-shadow: button-shadow var(--ring-dark-border-hover-color);\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-dark-border-hover-color), 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n  &[disabled] {\n    box-shadow: button-shadow var(--ring-button-dark-border-disabled-color);\n  }\n\n  &[disabled],\n  &[disabled].withIcon {\n    color: var(--ring-dark-disabled-color);\n  }\n\n  &[disabled] .icon {\n    color: var(--ring-button-dark-icon-disabled-color);\n  }\n\n  &.primary:active,\n  &.primary.active {\n    background-color: var(--ring-main-hover-color);\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &.danger:active,\n  &.danger.active {\n    color: var(--ring-icon-error-color);\n    background-color: var(--ring-button-dark-danger-active-color);\n  }\n\n  &.danger:active,\n  &.danger.active,\n  &.danger:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-button-dark-danger-hover-color);\n  }\n\n  &.withIcon {\n    color: var(--ring-dark-secondary-color);\n  }\n\n  & .loaderBackground::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        var(--ring-button-dark-loader-background) 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n  }\n\n  & .dropdownIcon {\n    color: var(--ring-dark-secondary-color);\n  }\n}\n\n.dark.danger:hover {\n  box-shadow: button-shadow var(--ring-button-dark-danger-hover-color);\n}\n\n.button {\n  composes: button from "../button-group/button-group.css";\n  composes: button from "../button-set/button-set.css";\n  composes: button from "../button-toolbar/button-toolbar.css";\n\n  position: relative;\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  height: height;\n  margin: 0;\n  padding: 0 calc(unit * 2);\n\n  cursor: pointer;\n  transition: color var(--ring-ease), background-color var(--ring-ease), box-shadow var(--ring-ease);\n  text-decoration: none;\n\n  border: 0;\n  border-radius: var(--ring-border-radius);\n  outline: 0;\n\n  font-family: var(--ring-font-family);\n  font-size: var(--ring-font-size-smaller);\n\n  line-height: height;\n\n  &:hover {\n    transition: none;\n  }\n\n  &:global(.focus-visible) {\n    transition: none;\n  }\n\n  &[disabled] {\n    pointer-events: none;\n  }\n\n  &::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n    outline: 0;\n  }\n}\n\n.active {\n  composes: active from "../button-group/button-group.css";\n}\n\n.primary {\n  color: var(--ring-dark-text-color);\n  background-color: var(--ring-main-color);\n  box-shadow: none;\n\n  &.withIcon,\n  &.withIcon:active,\n  &.withIcon.active {\n    color: var(--ring-main-color);\n  }\n\n  &:global(.focus-visible) {\n    transition: none;\n\n    background-color: var(--ring-main-hover-color);\n    box-shadow: none;\n  }\n\n  &[disabled] {\n    background-color: var(--ring-content-background-color);\n    box-shadow: button-shadow var(--ring-borders-color);\n  }\n\n  &[disabled].loader {\n    color: var(--ring-dark-text-color);\n  }\n\n  & .loaderBackground {\n    top: 0;\n    right: 0;\n    bottom: 0;\n    left: 0;\n\n    border-radius: var(--ring-border-radius);\n\n    &::before {\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          var(--ring-button-loader-background) 40%,\n          var(--ring-main-color) 80%\n        );\n    }\n  }\n}\n\n.primary:hover {\n  transition: none;\n\n  background-color: var(--ring-main-hover-color);\n  box-shadow: none;\n}\n\n.danger {\n  &,\n  &.withIcon,\n  &.withIcon:active,\n  &.withIcon.active,\n  &.text,\n  &.text:active,\n  &.text.active {\n    color: var(--ring-error-color);\n  }\n\n  &:global(.focus-visible),\n  &:hover {\n    transition: none;\n  }\n}\n\n.dark.danger {\n  &,\n  &:active,\n  &.active {\n    color: var(--ring-icon-error-color);\n  }\n}\n\n.text.text,\n.withIcon.withIcon {\n  background-color: transparent;\n  box-shadow: none;\n\n  &:hover {\n    transition: none;\n  }\n\n  &:active,\n  &.active {\n    background-color: transparent;\n    box-shadow: none;\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: inset 0 0 0 2px var(--ring-border-hover-color);\n  }\n}\n\n.loader.text > .content {\n  animation-name: text-loading;\n  animation-duration: 1200ms;\n  animation-iteration-count: infinite;\n}\n\n.text.text:hover {\n  background-color: transparent;\n  box-shadow: none;\n}\n\n.withIcon:hover:not(:global(.focus-visible)) {\n  background-color: transparent;\n  box-shadow: none;\n}\n\n.text {\n  color: var(--ring-main-color);\n}\n\n.inline {\n  display: inline-block;\n\n  margin: 0;\n  padding: 0;\n\n  font-size: var(--ring-font-size);\n}\n\n.withIcon {\n  padding: 0 unit;\n}\n\n.text {\n  &:active,\n  &.active {\n    color: var(--ring-link-hover-color);\n  }\n}\n\n.withIcon {\n  &:active,\n  &.active {\n    color: var(--ring-main-color);\n  }\n}\n\n.withIcon:hover {\n  color: var(--ring-link-hover-color);\n}\n\n.text:hover {\n  color: var(--ring-link-hover-color);\n}\n\n.icon {\n  color: inherit;\n\n  line-height: normal;\n\n  &:not(:last-child) {\n    margin-right: calc(unit * 0.5);\n  }\n}\n\n.withNormalIconLight .icon {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-color);\n}\n\n.withNormalIconDark .icon {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-button-dark-icon-color);\n}\n\n.withNormalIconLight:active,\n.withNormalIconLight.active,\n.withNormalIconDark:active,\n.withNormalIconDark.active {\n  color: var(--ring-main-color);\n\n  & .icon {\n    transition: none;\n\n    color: inherit;\n  }\n}\n\n.withNormalIconLight:hover .icon,\n.withNormalIconDark:hover .icon,\n.withDangerIconLight:hover .icon,\n.withDangerIconDark:hover .icon {\n  transition: none;\n\n  color: inherit;\n}\n\n.withDangerIconLight .icon,\n.withDangerIconLight:active .icon {\n  color: var(--ring-icon-error-color);\n}\n\n.withDangerIconDark .icon,\n.withDangerIconDark:active .icon {\n  color: var(--ring-error-color);\n}\n\n.loader {\n  position: relative;\n  z-index: 0;\n\n  pointer-events: none;\n\n  background-color: transparent;\n}\n\n.loaderBackground {\n  position: absolute;\n  z-index: -1;\n  top: 1px;\n  right: 1px;\n  bottom: 1px;\n  left: 1px;\n\n  overflow: hidden;\n\n  border-radius: var(--ring-border-radius-small);\n\n  &::before {\n    display: block;\n\n    width: calc(100% + loaderWidth);\n    height: 100%;\n\n    content: "";\n    animation: progress 1s linear infinite;\n\n    background-repeat: repeat;\n    background-size: loaderWidth;\n  }\n}\n\n.delayed .content::after {\n  content: "…";\n}\n\n.short {\n  width: calc(unit * 4);\n  padding: 0;\n}\n\n.dropdownIcon {\n  margin-right: -2px;\n\n  margin-left: 2px;\n\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-secondary-color);\n\n  line-height: normal;\n}\n\n.button:hover .dropdownIcon {\n  transition: none;\n\n  color: var(--ring-main-color);\n}\n\n@keyframes progress {\n  from {\n    transform: translateX(calc(0 - loaderWidth));\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@keyframes text-loading {\n  50% {\n    opacity: 0.5;\n  }\n}\n',null],sourceRoot:""}]),p.locals={unit:""+l.default.locals.unit,"button-shadow":"inset 0 0 0 1px",height:"24px",loaderWidth:"64px",light:"light_b3b0",active:"active_bbe6 "+c.Z.locals.active,withIcon:"withIcon_ef77",icon:"icon_e878",primary:"primary_ddae",danger:"danger_bcea",loaderBackground:"loaderBackground_d9f5",dark:"dark_e616",dropdownIcon:"dropdownIcon_e982",button:"button_aba4 "+c.Z.locals.button+" "+u.Z.locals.button+" "+s.Z.locals.button,loader:"loader_cbfc",text:"text_fc2a",content:"content_b2b8","text-loading":"text-loading_d1b4",inline:"inline_b4a2",withNormalIconLight:"withNormalIconLight_d71b",withNormalIconDark:"withNormalIconDark_a9e5",withDangerIconLight:"withDangerIconLight_c37c",withDangerIconDark:"withDangerIconDark_e5a4",progress:"progress_ed8f",delayed:"delayed_d562",short:"short_a07a"};const d=p},3109:(e,n,t)=>{"use strict";t.r(n),t.d(n,{default:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,'.checkbox_dccf {\n  position: relative;\n\n  display: inline-block;\n\n  text-align: left;\n\n  color: var(--ring-text-color);\n  outline: none\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.checkbox_dccf:hover .cell_edda {\n    transition: background-color var(--ring-ease);\n\n    border-color: var(--ring-border-hover-color);\n  }}\n\n.cell_edda {\n  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transparent;\n  }\n\n.input_f220::placeholder {\n    color: transparent;\n  }\n\n.input_f220[disabled] {\n    color: var(--ring-disabled-color);\n\n    -webkit-text-fill-color: var(--ring-disabled-color); /* Required for Safari, see RG-2063 for details */\n  }\n\n.input_f220 {\n\n  /*\n    Kill yellow/blue webkit autocomplete\n    https://css-tricks.com/snippets/css/change-autocomplete-styles-webkit-browsers/\n  */\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.input_f220:-webkit-autofill:hover {\n      -webkit-transition: background-color 50000s ease-in-out 0s;\n      transition: background-color 50000s ease-in-out 0s;\n    }}\n\n.input_f220:-webkit-autofill,\n    .input_f220:-webkit-autofill:focus {\n      -webkit-transition: background-color 50000s ease-in-out 0s;\n      transition: background-color 50000s ease-in-out 0s;\n    }\n\n.input_f220 {\n\n  /* if you need a cross, pass onClear prop */\n}\n\n.input_f220::-ms-clear {\n    display: none;\n  }\n\n.withIcon_f066 .input_f220,\n.withIcon_f066 .label_db4f {\n  padding-left: 22px\n}\n\n[dir=rtl] :is(.withIcon_f066 .input_f220,.withIcon_f066 .label_db4f) {\n    padding-right: 22px;\n    padding-left: 0\n}\n\n.icon_e49c,\n\n.clear_ffc3.clear_ffc3 {\n  position: absolute;\n  top: 17px;\n\n  line-height: 32px\n}\n\n.compact_ac08 :is(.icon_e49c,.clear_ffc3.clear_ffc3) {\n    top: 1px\n}\n\n.icon_e49c {\n  left: 0;\n\n  color: var(--ring-icon-color)\n}\n\n[dir=rtl] .icon_e49c {\n    right: 0;\n    left: auto\n}\n\n.clear_ffc3 {\n  right: 0;\n\n  padding-right: 0\n}\n\n.empty_cc0d .clear_ffc3 {\n    display: none\n}\n\n[dir=rtl] .clear_ffc3 {\n    right: auto;\n    left: 0\n}\n\ntextarea.input_f220 {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  padding-top: 8px;\n\n  resize: none;\n}\n\n.label_db4f {\n  position: absolute;\n  top: 23px;\n  left: 0;\n\n  transition: transform var(--ring-fast-ease), color var(--ring-fast-ease);\n  transform-origin: top left;\n  pointer-events: none\n}\n\n.light_d369 .label_db4f {\n    color: var(--ring-secondary-color)\n}\n\n.dark_a1d3 .label_db4f {\n    color: var(--ring-dark-secondary-color)\n}\n\n.input_f220:focus ~ .label_db4f,\n.container_ee33.active_f5cf > .label_db4f,\n.container_ee33:not(.empty_cc0d) > .label_db4f {\n  transform: translateY(-20px) scale(0.92308);\n}\n\n.noLabel_e16e ::-moz-placeholder, .input_f220:focus::-moz-placeholder {\n  -moz-transition: color var(--ring-fast-ease);\n  transition: color var(--ring-fast-ease);\n}\n\n.noLabel_e16e :-ms-input-placeholder, .input_f220:focus:-ms-input-placeholder {\n  -ms-transition: color var(--ring-fast-ease);\n  transition: color var(--ring-fast-ease);\n}\n\n.noLabel_e16e ::placeholder,\n.input_f220:focus::placeholder {\n  transition: color var(--ring-fast-ease);\n}\n\n.light_d369.noLabel_e16e ::-moz-placeholder, .light_d369 :focus::-moz-placeholder {\n  color: 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color: var(--ring-error-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.sizeS_c560 {\n  width: 96px;\n}\n\n.sizeM_aee6 {\n  width: 240px;\n}\n\n.sizeL_b0ca {\n  width: 400px;\n}\n\n.sizeFULL_f4f9 {\n  width: 100%;\n}\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/input/input.css","<no 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"../global/variables.css";\n\n@value unit from "../global/global.css";\n@value iconOffset: calc(unit * 3 - 2px);\n\n.container {\n  composes: font-lower from  "../global/global.css";\n\n  position: relative;\n\n  box-sizing: border-box;\n  min-height: calc(unit * 8);\n  padding-top: calc(unit * 2);\n\n  & * {\n    box-sizing: border-box;\n  }\n}\n\n.compact {\n  min-height: calc(unit * 4);\n  padding: 0;\n}\n\n.input {\n  width: 100%;\n  min-height: calc(unit * 4);\n  padding: 0;\n\n  border: none;\n  outline: none;\n  background: transparent;\n\n  font: inherit;\n  caret-color: var(--ring-main-color);\n\n  @nest .clearable & {\n    padding-right: calc(unit * 3);\n\n    @nest [dir=rtl] & {\n      padding-right: 0;\n      padding-left: calc(unit * 3);\n    }\n  }\n\n  @nest .light & {\n    color: var(--ring-text-color);\n  }\n\n  @nest .dark & {\n    color: var(--ring-dark-text-color);\n  }\n\n  &::placeholder {\n    color: transparent;\n  }\n\n  &[disabled] {\n    color: var(--ring-disabled-color);\n\n    -webkit-text-fill-color: var(--ring-disabled-color); /* Required for Safari, see RG-2063 for details */\n  }\n\n  /*\n    Kill yellow/blue webkit autocomplete\n    https://css-tricks.com/snippets/css/change-autocomplete-styles-webkit-browsers/\n  */\n  &:-webkit-autofill {\n    &,\n    &:hover,\n    &:focus {\n      transition: background-color 50000s ease-in-out 0s;\n    }\n  }\n\n  /* if you need a cross, pass onClear prop */\n  &::-ms-clear {\n    display: none;\n  }\n}\n\n.withIcon .input,\n.withIcon .label {\n  padding-left: iconOffset;\n\n  @nest [dir=rtl] & {\n    padding-right: iconOffset;\n    padding-left: 0;\n  }\n}\n\n.icon,\n/* override Button */\n.clear.clear {\n  position: absolute;\n  top: 17px;\n\n  line-height: calc(unit * 4);\n\n  @nest .compact & {\n    top: 1px;\n  }\n}\n\n.icon {\n  left: 0;\n\n  color: var(--ring-icon-color);\n\n  @nest [dir=rtl] & {\n    right: 0;\n    left: auto;\n  }\n}\n\n.clear {\n  right: 0;\n\n  padding-right: 0;\n\n  @nest .empty & {\n    display: none;\n  }\n\n  @nest [dir=rtl] & {\n    right: auto;\n    left: 0;\n  }\n}\n\ntextarea.input {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  padding-top: unit;\n\n  resize: none;\n}\n\n.label {\n  position: absolute;\n  top: calc(unit * 3 - 1px);\n  left: 0;\n\n  transition: transform var(--ring-fast-ease), color var(--ring-fast-ease);\n  transform-origin: top left;\n  pointer-events: none;\n\n  @nest .light & {\n    color: var(--ring-secondary-color);\n  }\n\n  @nest .dark & {\n    color: var(--ring-dark-secondary-color);\n  }\n}\n\n.input:focus ~ .label,\n.container.active > .label,\n.container:not(.empty) > .label {\n  transform: translateY(calc(unit * -2.5)) scale(calc(12 / 13));\n}\n\n.noLabel ::placeholder,\n.input:focus::placeholder {\n  transition: color var(--ring-fast-ease);\n}\n\n.light.noLabel ::placeholder,\n.light :focus::placeholder {\n  color: var(--ring-disabled-color);\n}\n\n/* stylelint-disable-next-line selector-max-specificity */\n.dark.noLabel ::placeholder,\n/* stylelint-disable-next-line selector-max-specificity */\n.dark :focus::placeholder {\n  color: var(--ring-secondary-color);\n}\n\n.input:focus ~ .label {\n  color: var(--ring-main-color);\n}\n\n.error > :focus ~ .label {\n  color: var(--ring-error-color);\n}\n\n.underline {\n  height: 1px;\n\n  border-bottom-width: 1px;\n  border-bottom-style: solid;\n\n  @nest .light & {\n    border-color: var(--ring-borders-color);\n  }\n\n  @nest .dark & {\n    border-color: var(--ring-dark-borders-color);\n  }\n}\n\n.input[disabled] ~ .underline {\n  border-bottom-style: dashed;\n}\n\n.focusUnderline,\n.errorUnderline {\n  width: 100%;\n  height: 2px;\n\n  transform: scaleX(0);\n  transform-origin: top left;\n}\n\n.focusUnderline {\n  margin-top: -1px;\n\n  background: var(--ring-main-color);\n}\n\n.errorUnderline {\n  margin-top: -2px;\n\n  background: var(--ring-icon-error-color);\n\n  @nest .dark & {\n    background: var(--ring-error-color);\n  }\n}\n\n.input:focus ~ .focusUnderline,\n.container.active > .focusUnderline,\n.error > .errorUnderline {\n  transition: transform 0.15s ease-out;\n  transform: scaleX(1);\n}\n\n.errorText {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  height: 0;\n  padding: calc(unit / 2) 0 unit;\n\n  transition: height 0.3s ease-out;\n\n  color: var(--ring-error-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.sizeS {\n  width: calc(unit * 12);\n}\n\n.sizeM {\n  width: calc(unit * 30);\n}\n\n.sizeL {\n  width: calc(unit * 50);\n}\n\n.sizeFULL {\n  width: 100%;\n}\n',null],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,iconOffset:"22px",container:"container_ee33 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{.link_e6e5:hover {\n    text-decoration: none;\n  }}\n\n.link_e6e5 { /* To override link stiles inside alert */\n\n  cursor: pointer;\n  transition: color var(--ring-fast-ease);\n\n  color: var(--ring-link-color)\n}\n\n.link_e6e5 {\n    text-decoration: none;\n  }\n\n.link_e6e5.hover_bed7 {\n    transition: none;\n\n    color: var(--ring-link-hover-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5:hover .inner_e3ba {\n    border-width: 0;\n    border-bottom: 2px solid;\n    border-image-source: linear-gradient(currentcolor 50%, transparent 50%);\n    border-image-slice: 0 0 100% 0;\n  }}\n\n.link_e6e5.active_f804 {\n    color: inherit;\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5.compatibilityUnderlineMode_e7a0:hover {\n    text-decoration: underline\n\n    /* stylelint-disable-next-line selector-max-specificity */\n  }\n    .link_e6e5.compatibilityUnderlineMode_e7a0:hover .inner_e3ba {\n      border: none;\n    }}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5.pseudo_d9ae:hover {\n    text-decoration: none\n\n    /* stylelint-disable-next-line selector-max-specificity */\n  }\n    .link_e6e5.pseudo_d9ae:hover .inner_e3ba {\n      border: none;\n    }}\n\n.link_e6e5 {\n\n  outline: none;\n  }\n\n.link_e6e5.focus-visible {\n    box-shadow: 0 0 0 2px var(--ring-border-hover-color);\n  }\n\n@media (-webkit-min-device-pixel-ratio: 2), (min-resolution: 2dppx) {@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5:hover .inner_e3ba {\n    border-bottom-width: 1px;\n  }}\n}\n\n.text_e98a {\n  border-radius: var(--ring-border-radius);\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.inherit_d267:not(:hover) {\n  color: inherit;\n}}\n\n.pseudo_d9ae {\n  margin: 0;\n  padding: 0;\n\n  text-align: left;\n\n  border: 0;\n\n  background: transparent;\n\n  font: inherit\n}\n\n.pseudo_d9ae::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n  }\n","",{version:3,sources:["<no 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var(--ring-fast-ease);\n\n  color: var(--ring-link-color);\n\n  &,\n  &:hover {\n    text-decoration: none;\n  }\n\n  &:hover,\n  &.hover {\n    transition: none;\n\n    color: var(--ring-link-hover-color);\n  }\n\n  &:hover .inner {\n    border-width: 0;\n    border-bottom: 2px solid;\n    border-image-source: linear-gradient(currentcolor 50%, transparent 50%);\n    border-image-slice: 0 0 100% 0;\n  }\n\n  &.active {\n    color: inherit;\n  }\n\n  &.compatibilityUnderlineMode:hover {\n    text-decoration: underline;\n\n    /* stylelint-disable-next-line selector-max-specificity */\n    & .inner {\n      border: none;\n    }\n  }\n\n  &.pseudo:hover {\n    text-decoration: none;\n\n    /* stylelint-disable-next-line selector-max-specificity */\n    & .inner {\n      border: none;\n    }\n  }\n\n  outline: none;\n\n  &:global(.focus-visible) {\n    box-shadow: 0 0 0 2px var(--ring-border-hover-color);\n  }\n}\n\n@media (min-resolution: 2dppx) {\n  .link:hover .inner {\n    border-bottom-width: 1px;\n  }\n}\n\n.text {\n  border-radius: var(--ring-border-radius);\n}\n\n.inherit:not(:hover) {\n  color: inherit;\n}\n\n.pseudo {\n  margin: 0;\n  padding: 0;\n\n  text-align: left;\n\n  border: 0;\n\n  background: transparent;\n\n  font: inherit;\n\n  &::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n  }\n}\n'],sourceRoot:""}]),u.locals={link:"link_e6e5 "+l.Z.locals.link,hover:"hover_bed7",inner:"inner_e3ba",active:"active_f804",compatibilityUnderlineMode:"compatibilityUnderlineMode_e7a0",pseudo:"pseudo_d9ae",text:"text_e98a",inherit:"inherit_d267"};const s=u},5578:(e,n,t)=>{"use strict";t.r(n),t.d(n,{default:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".list_a01c {\n  position: relative;\n\n  z-index: 1;\n\n  border-radius: var(--ring-border-radius);\n\n  line-height: normal;\n}\n\n.simpleInner_a4f8 {\n  overflow: auto;\n}\n\n.scrolling_a910 {\n  pointer-events: 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contain;\n}\n\n.highlight_e4dd {\n  color: var(--ring-link-hover-color);\n}\n\n.service_a4fc {\n  color: var(--ring-secondary-color);\n}\n\n.glyph_dfd5 {\n  float: left;\n\n  width: 20px;\n  margin-right: 8px;\n\n  color: var(--ring-icon-secondary-color);\n}\n\n.avatar_f258 {\n\n  top: 0;\n}\n\n.rightGlyph_fb77 {\n\n  float: right;\n\n  margin-right: 0;\n  margin-left: 16px;\n}\n\n.checkboxContainer_c949 {\n  position: absolute;\n  top: 7px;\n  left: 19px;\n\n  width: 20px;\n  height: 20px;\n  margin-right: 8px;\n}\n\n.compact_efa8 .checkboxContainer_c949 {\n  top: 0;\n\n  width: 16px;\n  height: 16px;\n}\n\n.title_e1bf {\n  display: block;\n\n  margin-top: 10px;\n  margin-bottom: 6px;\n  padding: 8px 16px 0;\n\n  text-align: left\n}\n\n[dir=rtl] .title_e1bf {\n    text-align: right;\n    direction: ltr\n}\n\n.title_first_ac55 {\n  margin-top: 0;\n}\n\n.text_fe0e {\n  letter-spacing: 1.5px;\n  text-transform: uppercase;\n\n  color: var(--ring-secondary-color);\n\n  font-size: 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font-weight: 400;\n  line-height: var(--ring-line-height-lowest);\n}\n\n.right {\n  display: flex;\n  align-items: center;\n  align-self: center;\n  flex-direction: row;\n  flex-shrink: 0;\n}\n\n.details {\n  margin-bottom: 6px;\n\n  white-space: normal;\n\n  color: var(--ring-secondary-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.padded {\n  margin-left: 20px;\n}\n\n/* Override :last-child */\n.hint.hint {\n  margin-bottom: 0;\n\n  border-top: 1px solid var(--ring-line-color);\n  background-color: var(--ring-sidebar-background-color);\n\n  font-size: var(--ring-font-size-smaller);\n}\n\n.action {\n  cursor: pointer;\n\n  color: var(--ring-text-color);\n}\n\n/* override link */\n.actionLink.actionLink {\n  transition: none;\n}\n\n.hover:not(.error) {\n  background-color: var(--ring-selected-background-color);\n}\n\n.icon {\n  display: inline-block;\n\n  width: 20px;\n  height: 20px;\n  margin-left: calc(unit * 2);\n\n  background-repeat: no-repeat;\n  background-position: center;\n\n  background-size: contain;\n}\n\n.highlight {\n  color: var(--ring-link-hover-color);\n}\n\n.service {\n  color: var(--ring-secondary-color);\n}\n\n.glyph {\n  float: left;\n\n  width: 20px;\n  margin-right: unit;\n\n  color: var(--ring-icon-secondary-color);\n}\n\n.avatar {\n  composes: glyph;\n\n  top: 0;\n}\n\n.rightGlyph {\n  composes: glyph;\n\n  float: right;\n\n  margin-right: 0;\n  margin-left: calc(unit * 2);\n}\n\n.checkboxContainer {\n  position: absolute;\n  top: 7px;\n  left: 19px;\n\n  width: 20px;\n  height: 20px;\n  margin-right: unit;\n}\n\n.compact .checkboxContainer {\n  top: 0;\n\n  width: calc(unit * 2);\n  height: calc(unit * 2);\n}\n\n.title {\n  display: block;\n\n  margin-top: 10px;\n  margin-bottom: 6px;\n  padding: listSpacing calc(unit * 2) 0;\n\n  text-align: left;\n\n  @nest [dir=rtl] & {\n    text-align: right;\n    direction: ltr;\n  }\n}\n\n.title_first {\n  margin-top: 0;\n}\n\n.text {\n  letter-spacing: 1.5px;\n  text-transform: uppercase;\n\n  color: var(--ring-secondary-color);\n\n  font-size: var(--ring-font-size-smaller);\n}\n\n.fade {\n  position: absolute;\n  bottom: 0;\n\n  width: 100%;\n  height: calc(unit * 3);\n\n  pointer-events: none;\n\n  background: linear-gradient(to bottom, rgba(255, 255, 255, 0), var(--ring-content-background-color));\n}\n\n.disabled {\n  pointer-events: none;\n\n  color: 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}\n}\n\n.selectedIcon {\n  composes: resetButton;\n\n  display: inline-block;\n\n  width: calc(2 * unit);\n  height: calc(2 * unit);\n  margin: 0 4px;\n\n  background-repeat: no-repeat;\n  background-position: center;\n\n  background-size: contain;\n}\n\n.clearIcon {\n  padding: 0 3px;\n\n  vertical-align: -1px;\n}\n\n.clearIcon.clearIcon > span > span {\n  color: var(--ring-icon-secondary-color);\n}\n\n.sizeS {\n  width: calc(unit * 12);\n}\n\n.sizeM {\n  width: calc(unit * 30);\n}\n\n.sizeL {\n  width: calc(unit * 50);\n}\n\n.sizeFULL {\n  width: 100%;\n}\n\n.sizeAUTO {\n  max-width: 100%;\n}\n\n.buttonMode,\n.materialMode {\n  position: relative;\n\n  cursor: pointer;\n}\n\n.value {\n  composes: ellipsis from "../global/global.css";\n  composes: font from "../global/global.css";\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  width: 100%;\n  height: calc(unit * 4 + 1px);\n  padding: 0 0 3px;\n\n  cursor: pointer;\n  transition: color var(--ring-ease), border-color 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+/** @license React v17.0.2
+ * react.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
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t=n.maxScrollSize,r=void 0===t?C():t,o=E(n,["maxScrollSize"]);c(this,e),A(this,"_cellSizeAndPositionManager",void 0),A(this,"_maxScrollSize",void 0),this._cellSizeAndPositionManager=new _(o),this._maxScrollSize=r}return s(e,[{key:"areOffsetsAdjusted",value:function(){return this._cellSizeAndPositionManager.getTotalSize()>this._maxScrollSize}},{key:"configure",value:function(e){this._cellSizeAndPositionManager.configure(e)}},{key:"getCellCount",value:function(){return this._cellSizeAndPositionManager.getCellCount()}},{key:"getEstimatedCellSize",value:function(){return this._cellSizeAndPositionManager.getEstimatedCellSize()}},{key:"getLastMeasuredIndex",value:function(){return this._cellSizeAndPositionManager.getLastMeasuredIndex()}},{key:"getOffsetAdjustment",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize(),i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:o});return Math.round(i*(o-r))}},{key:"getSizeAndPositionOfCell",value:function(e){return this._cellSizeAndPositionManager.getSizeAndPositionOfCell(e)}},{key:"getSizeAndPositionOfLastMeasuredCell",value:function(){return this._cellSizeAndPositionManager.getSizeAndPositionOfLastMeasuredCell()}},{key:"getTotalSize",value:function(){return Math.min(this._maxScrollSize,this._cellSizeAndPositionManager.getTotalSize())}},{key:"getUpdatedOffsetForIndex",value:function(e){var n=e.align,t=void 0===n?"auto":n,r=e.containerSize,o=e.currentOffset,i=e.targetIndex;o=this._safeOffsetToOffset({containerSize:r,offset:o});var a=this._cellSizeAndPositionManager.getUpdatedOffsetForIndex({align:t,containerSize:r,currentOffset:o,targetIndex:i});return this._offsetToSafeOffset({containerSize:r,offset:a})}},{key:"getVisibleCellRange",value:function(e){var n=e.containerSize,t=e.offset;return t=this._safeOffsetToOffset({containerSize:n,offset:t}),this._cellSizeAndPositionManager.getVisibleCellRange({containerSize:n,offset:t})}},{key:"resetCell",value:function(e){this._cellSizeAndPositionManager.resetCell(e)}},{key:"_getOffsetPercentage",value:function(e){var n=e.containerSize,t=e.offset,r=e.totalSize;return r<=n?0:t/(r-n)}},{key:"_offsetToSafeOffset",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize();if(r===o)return t;var i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:r});return Math.round(i*(o-n))}},{key:"_safeOffsetToOffset",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize();if(r===o)return t;var i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:o});return Math.round(i*(r-n))}}]),e}();function x(){var e=!(arguments.length>0&&void 0!==arguments[0])||arguments[0],n={};return function(t){var r=t.callback,o=t.indices,i=Object.keys(o),a=!e||i.every((function(e){var n=o[e];return Array.isArray(n)?n.length>0:n>=0})),l=i.length!==Object.keys(n).length||i.some((function(e){var t=n[e],r=o[e];return Array.isArray(r)?t.join(",")!==r.join(","):t!==r}));n=o,a&&l&&r(o)}}function k(e){var n=e.cellSize,t=e.cellSizeAndPositionManager,r=e.previousCellsCount,o=e.previousCellSize,i=e.previousScrollToAlignment,a=e.previousScrollToIndex,l=e.previousSize,c=e.scrollOffset,u=e.scrollToAlignment,s=e.scrollToIndex,f=e.size,p=e.sizeJustIncreasedFromZero,d=e.updateScrollIndexCallback,h=t.getCellCount(),g=s>=0&&s<h;g&&(f!==l||p||!o||"number"==typeof n&&n!==o||u!==i||s!==a)?d(s):!g&&h>0&&(f<l||h<r)&&c>t.getTotalSize()-f&&d(h-1)}const S=!("undefined"==typeof window||!window.document||!window.document.createElement);var O,B;function I(){var e=this.constructor.getDerivedStateFromProps(this.props,this.state);null!=e&&this.setState(e)}function T(e){this.setState(function(n){var t=this.constructor.getDerivedStateFromProps(e,n);return null!=t?t:null}.bind(this))}function P(e,n){try{var t=this.props,r=this.state;this.props=e,this.state=n,this.__reactInternalSnapshotFlag=!0,this.__reactInternalSnapshot=this.getSnapshotBeforeUpdate(t,r)}finally{this.props=t,this.state=r}}I.__suppressDeprecationWarning=!0,T.__suppressDeprecationWarning=!0,P.__suppressDeprecationWarning=!0;var j,z,R=(B="undefined"!=typeof window?window:"undefined"!=typeof self?self:{}).requestAnimationFrame||B.webkitRequestAnimationFrame||B.mozRequestAnimationFrame||B.oRequestAnimationFrame||B.msRequestAnimationFrame||function(e){return B.setTimeout(e,1e3/60)},M=B.cancelAnimationFrame||B.webkitCancelAnimationFrame||B.mozCancelAnimationFrame||B.oCancelAnimationFrame||B.msCancelAnimationFrame||function(e){B.clearTimeout(e)},D=R,N=M,L=function(e){return N(e.id)},F=function(e,n){var t;Promise.resolve().then((function(){t=Date.now()}));var r={id:D((function o(){Date.now()-t>=n?e.call():r.id=D(o)}))};return r};function U(e,n){var t=Object.keys(e);if(Object.getOwnPropertySymbols){var r=Object.getOwnPropertySymbols(e);n&&(r=r.filter((function(n){return Object.getOwnPropertyDescriptor(e,n).enumerable}))),t.push.apply(t,r)}return t}function W(e){for(var n=1;n<arguments.length;n++){var t=null!=arguments[n]?arguments[n]:{};n%2?U(t,!0).forEach((function(n){A(e,n,t[n])})):Object.getOwnPropertyDescriptors?Object.defineProperties(e,Object.getOwnPropertyDescriptors(t)):U(t).forEach((function(n){Object.defineProperty(e,n,Object.getOwnPropertyDescriptor(t,n))}))}return e}var H="observed",G="requested",q=(z=j=function(n){function t(e){var n;c(this,t),A(p(n=d(this,h(t).call(this,e))),"_onGridRenderedMemoizer",x()),A(p(n),"_onScrollMemoizer",x(!1)),A(p(n),"_deferredInvalidateColumnIndex",null),A(p(n),"_deferredInvalidateRowIndex",null),A(p(n),"_recomputeScrollLeftFlag",!1),A(p(n),"_recomputeScrollTopFlag",!1),A(p(n),"_horizontalScrollBarSize",0),A(p(n),"_verticalScrollBarSize",0),A(p(n),"_scrollbarPresenceChanged",!1),A(p(n),"_scrollingContainer",void 0),A(p(n),"_childrenToDisplay",void 0),A(p(n),"_columnStartIndex",void 0),A(p(n),"_columnStopIndex",void 0),A(p(n),"_rowStartIndex",void 0),A(p(n),"_rowStopIndex",void 0),A(p(n),"_renderedColumnStartIndex",0),A(p(n),"_renderedColumnStopIndex",0),A(p(n),"_renderedRowStartIndex",0),A(p(n),"_renderedRowStopIndex",0),A(p(n),"_initialScrollTop",void 0),A(p(n),"_initialScrollLeft",void 0),A(p(n),"_disablePointerEventsTimeoutId",void 0),A(p(n),"_styleCache",{}),A(p(n),"_cellCache",{}),A(p(n),"_debounceScrollEndedCallback",(function(){n._disablePointerEventsTimeoutId=null,n.setState({isScrolling:!1,needToResetStyleCache:!1})})),A(p(n),"_invokeOnGridRenderedHelper",(function(){var e=n.props.onSectionRendered;n._onGridRenderedMemoizer({callback:e,indices:{columnOverscanStartIndex:n._columnStartIndex,columnOverscanStopIndex:n._columnStopIndex,columnStartIndex:n._renderedColumnStartIndex,columnStopIndex:n._renderedColumnStopIndex,rowOverscanStartIndex:n._rowStartIndex,rowOverscanStopIndex:n._rowStopIndex,rowStartIndex:n._renderedRowStartIndex,rowStopIndex:n._renderedRowStopIndex}})})),A(p(n),"_setScrollingContainerRef",(function(e){n._scrollingContainer=e})),A(p(n),"_onScroll",(function(e){e.target===n._scrollingContainer&&n.handleScrollEvent(e.target)}));var r=new w({cellCount:e.columnCount,cellSizeGetter:function(n){return t._wrapSizeGetter(e.columnWidth)(n)},estimatedCellSize:t._getEstimatedColumnSize(e)}),o=new w({cellCount:e.rowCount,cellSizeGetter:function(n){return t._wrapSizeGetter(e.rowHeight)(n)},estimatedCellSize:t._getEstimatedRowSize(e)});return n.state={instanceProps:{columnSizeAndPositionManager:r,rowSizeAndPositionManager:o,prevColumnWidth:e.columnWidth,prevRowHeight:e.rowHeight,prevColumnCount:e.columnCount,prevRowCount:e.rowCount,prevIsScrolling:!0===e.isScrolling,prevScrollToColumn:e.scrollToColumn,prevScrollToRow:e.scrollToRow,scrollbarSize:0,scrollbarSizeMeasured:!1},isScrolling:!1,scrollDirectionHorizontal:1,scrollDirectionVertical:1,scrollLeft:0,scrollTop:0,scrollPositionChangeReason:null,needToResetStyleCache:!1},e.scrollToRow>0&&(n._initialScrollTop=n._getCalculatedScrollTop(e,n.state)),e.scrollToColumn>0&&(n._initialScrollLeft=n._getCalculatedScrollLeft(e,n.state)),n}return v(t,n),s(t,[{key:"getOffsetForCell",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:{},n=e.alignment,t=void 0===n?this.props.scrollToAlignment:n,r=e.columnIndex,o=void 0===r?this.props.scrollToColumn:r,i=e.rowIndex,a=void 0===i?this.props.scrollToRow:i,l=W({},this.props,{scrollToAlignment:t,scrollToColumn:o,scrollToRow:a});return{scrollLeft:this._getCalculatedScrollLeft(l),scrollTop:this._getCalculatedScrollTop(l)}}},{key:"getTotalRowsHeight",value:function(){return this.state.instanceProps.rowSizeAndPositionManager.getTotalSize()}},{key:"getTotalColumnsWidth",value:function(){return this.state.instanceProps.columnSizeAndPositionManager.getTotalSize()}},{key:"handleScrollEvent",value:function(e){var n=e.scrollLeft,t=void 0===n?0:n,r=e.scrollTop,o=void 0===r?0:r;if(!(o<0)){this._debounceScrollEnded();var i=this.props,a=i.autoHeight,l=i.autoWidth,c=i.height,u=i.width,s=this.state.instanceProps,f=s.scrollbarSize,p=s.rowSizeAndPositionManager.getTotalSize(),d=s.columnSizeAndPositionManager.getTotalSize(),h=Math.min(Math.max(0,d-u+f),t),g=Math.min(Math.max(0,p-c+f),o);if(this.state.scrollLeft!==h||this.state.scrollTop!==g){var v={isScrolling:!0,scrollDirectionHorizontal:h!==this.state.scrollLeft?h>this.state.scrollLeft?1:-1:this.state.scrollDirectionHorizontal,scrollDirectionVertical:g!==this.state.scrollTop?g>this.state.scrollTop?1:-1:this.state.scrollDirectionVertical,scrollPositionChangeReason:H};a||(v.scrollTop=g),l||(v.scrollLeft=h),v.needToResetStyleCache=!1,this.setState(v)}this._invokeOnScrollMemoizer({scrollLeft:h,scrollTop:g,totalColumnsWidth:d,totalRowsHeight:p})}}},{key:"invalidateCellSizeAfterRender",value:function(e){var n=e.columnIndex,t=e.rowIndex;this._deferredInvalidateColumnIndex="number"==typeof this._deferredInvalidateColumnIndex?Math.min(this._deferredInvalidateColumnIndex,n):n,this._deferredInvalidateRowIndex="number"==typeof this._deferredInvalidateRowIndex?Math.min(this._deferredInvalidateRowIndex,t):t}},{key:"measureAllCells",value:function(){var e=this.props,n=e.columnCount,t=e.rowCount,r=this.state.instanceProps;r.columnSizeAndPositionManager.getSizeAndPositionOfCell(n-1),r.rowSizeAndPositionManager.getSizeAndPositionOfCell(t-1)}},{key:"recomputeGridSize",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:{},n=e.columnIndex,t=void 0===n?0:n,r=e.rowIndex,o=void 0===r?0:r,i=this.props,a=i.scrollToColumn,l=i.scrollToRow,c=this.state.instanceProps;c.columnSizeAndPositionManager.resetCell(t),c.rowSizeAndPositionManager.resetCell(o),this._recomputeScrollLeftFlag=a>=0&&(1===this.state.scrollDirectionHorizontal?t<=a:t>=a),this._recomputeScrollTopFlag=l>=0&&(1===this.state.scrollDirectionVertical?o<=l:o>=l),this._styleCache={},this._cellCache={},this.forceUpdate()}},{key:"scrollToCell",value:function(e){var n=e.columnIndex,t=e.rowIndex,r=this.props.columnCount,o=this.props;r>1&&void 0!==n&&this._updateScrollLeftForScrollToColumn(W({},o,{scrollToColumn:n})),void 0!==t&&this._updateScrollTopForScrollToRow(W({},o,{scrollToRow:t}))}},{key:"componentDidMount",value:function(){var e=this.props,n=e.getScrollbarSize,r=e.height,o=e.scrollLeft,i=e.scrollToColumn,a=e.scrollTop,l=e.scrollToRow,c=e.width,u=this.state.instanceProps;if(this._initialScrollTop=0,this._initialScrollLeft=0,this._handleInvalidatedGridSize(),u.scrollbarSizeMeasured||this.setState((function(e){var t=W({},e,{needToResetStyleCache:!1});return t.instanceProps.scrollbarSize=n(),t.instanceProps.scrollbarSizeMeasured=!0,t})),"number"==typeof o&&o>=0||"number"==typeof a&&a>=0){var s=t._getScrollToPositionStateUpdate({prevState:this.state,scrollLeft:o,scrollTop:a});s&&(s.needToResetStyleCache=!1,this.setState(s))}this._scrollingContainer&&(this._scrollingContainer.scrollLeft!==this.state.scrollLeft&&(this._scrollingContainer.scrollLeft=this.state.scrollLeft),this._scrollingContainer.scrollTop!==this.state.scrollTop&&(this._scrollingContainer.scrollTop=this.state.scrollTop));var f=r>0&&c>0;i>=0&&f&&this._updateScrollLeftForScrollToColumn(),l>=0&&f&&this._updateScrollTopForScrollToRow(),this._invokeOnGridRenderedHelper(),this._invokeOnScrollMemoizer({scrollLeft:o||0,scrollTop:a||0,totalColumnsWidth:u.columnSizeAndPositionManager.getTotalSize(),totalRowsHeight:u.rowSizeAndPositionManager.getTotalSize()}),this._maybeCallOnScrollbarPresenceChange()}},{key:"componentDidUpdate",value:function(e,n){var t=this,r=this.props,o=r.autoHeight,i=r.autoWidth,a=r.columnCount,l=r.height,c=r.rowCount,u=r.scrollToAlignment,s=r.scrollToColumn,f=r.scrollToRow,p=r.width,d=this.state,h=d.scrollLeft,g=d.scrollPositionChangeReason,v=d.scrollTop,A=d.instanceProps;this._handleInvalidatedGridSize();var b=a>0&&0===e.columnCount||c>0&&0===e.rowCount;g===G&&(!i&&h>=0&&(h!==this._scrollingContainer.scrollLeft||b)&&(this._scrollingContainer.scrollLeft=h),!o&&v>=0&&(v!==this._scrollingContainer.scrollTop||b)&&(this._scrollingContainer.scrollTop=v));var m=(0===e.width||0===e.height)&&l>0&&p>0;if(this._recomputeScrollLeftFlag?(this._recomputeScrollLeftFlag=!1,this._updateScrollLeftForScrollToColumn(this.props)):k({cellSizeAndPositionManager:A.columnSizeAndPositionManager,previousCellsCount:e.columnCount,previousCellSize:e.columnWidth,previousScrollToAlignment:e.scrollToAlignment,previousScrollToIndex:e.scrollToColumn,previousSize:e.width,scrollOffset:h,scrollToAlignment:u,scrollToIndex:s,size:p,sizeJustIncreasedFromZero:m,updateScrollIndexCallback:function(){return t._updateScrollLeftForScrollToColumn(t.props)}}),this._recomputeScrollTopFlag?(this._recomputeScrollTopFlag=!1,this._updateScrollTopForScrollToRow(this.props)):k({cellSizeAndPositionManager:A.rowSizeAndPositionManager,previousCellsCount:e.rowCount,previousCellSize:e.rowHeight,previousScrollToAlignment:e.scrollToAlignment,previousScrollToIndex:e.scrollToRow,previousSize:e.height,scrollOffset:v,scrollToAlignment:u,scrollToIndex:f,size:l,sizeJustIncreasedFromZero:m,updateScrollIndexCallback:function(){return t._updateScrollTopForScrollToRow(t.props)}}),this._invokeOnGridRenderedHelper(),h!==n.scrollLeft||v!==n.scrollTop){var y=A.rowSizeAndPositionManager.getTotalSize(),E=A.columnSizeAndPositionManager.getTotalSize();this._invokeOnScrollMemoizer({scrollLeft:h,scrollTop:v,totalColumnsWidth:E,totalRowsHeight:y})}this._maybeCallOnScrollbarPresenceChange()}},{key:"componentWillUnmount",value:function(){this._disablePointerEventsTimeoutId&&L(this._disablePointerEventsTimeoutId)}},{key:"render",value:function(){var n=this.props,t=n.autoContainerWidth,r=n.autoHeight,o=n.autoWidth,i=n.className,a=n.containerProps,c=n.containerRole,u=n.containerStyle,s=n.height,f=n.id,p=n.noContentRenderer,d=n.role,h=n.style,g=n.tabIndex,v=n.width,A=this.state,b=A.instanceProps,y=A.needToResetStyleCache,E=this._isScrolling(),_={boxSizing:"border-box",direction:"ltr",height:r?"auto":s,position:"relative",width:o?"auto":v,WebkitOverflowScrolling:"touch",willChange:"transform"};y&&(this._styleCache={}),this.state.isScrolling||this._resetStyleCache(),this._calculateChildrenToRender(this.props,this.state);var C=b.columnSizeAndPositionManager.getTotalSize(),w=b.rowSizeAndPositionManager.getTotalSize(),x=w>s?b.scrollbarSize:0,k=C>v?b.scrollbarSize:0;k===this._horizontalScrollBarSize&&x===this._verticalScrollBarSize||(this._horizontalScrollBarSize=k,this._verticalScrollBarSize=x,this._scrollbarPresenceChanged=!0),_.overflowX=C+x<=v?"hidden":"auto",_.overflowY=w+k<=s?"hidden":"auto";var S=this._childrenToDisplay,O=0===S.length&&s>0&&v>0;return e.createElement("div",l({ref:this._setScrollingContainerRef},a,{"aria-label":this.props["aria-label"],"aria-readonly":this.props["aria-readonly"],className:m("ReactVirtualized__Grid",i),id:f,onScroll:this._onScroll,role:d,style:W({},_,{},h),tabIndex:g}),S.length>0&&e.createElement("div",{className:"ReactVirtualized__Grid__innerScrollContainer",role:c,style:W({width:t?"auto":C,height:w,maxWidth:C,maxHeight:w,overflow:"hidden",pointerEvents:E?"none":"",position:"relative"},u)},S),O&&p())}},{key:"_calculateChildrenToRender",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,t=e.cellRenderer,r=e.cellRangeRenderer,o=e.columnCount,i=e.deferredMeasurementCache,a=e.height,l=e.overscanColumnCount,c=e.overscanIndicesGetter,u=e.overscanRowCount,s=e.rowCount,f=e.width,p=e.isScrollingOptOut,d=n.scrollDirectionHorizontal,h=n.scrollDirectionVertical,g=n.instanceProps,v=this._initialScrollTop>0?this._initialScrollTop:n.scrollTop,A=this._initialScrollLeft>0?this._initialScrollLeft:n.scrollLeft,b=this._isScrolling(e,n);if(this._childrenToDisplay=[],a>0&&f>0){var m=g.columnSizeAndPositionManager.getVisibleCellRange({containerSize:f,offset:A}),y=g.rowSizeAndPositionManager.getVisibleCellRange({containerSize:a,offset:v}),E=g.columnSizeAndPositionManager.getOffsetAdjustment({containerSize:f,offset:A}),_=g.rowSizeAndPositionManager.getOffsetAdjustment({containerSize:a,offset:v});this._renderedColumnStartIndex=m.start,this._renderedColumnStopIndex=m.stop,this._renderedRowStartIndex=y.start,this._renderedRowStopIndex=y.stop;var C=c({direction:"horizontal",cellCount:o,overscanCellsCount:l,scrollDirection:d,startIndex:"number"==typeof m.start?m.start:0,stopIndex:"number"==typeof m.stop?m.stop:-1}),w=c({direction:"vertical",cellCount:s,overscanCellsCount:u,scrollDirection:h,startIndex:"number"==typeof y.start?y.start:0,stopIndex:"number"==typeof y.stop?y.stop:-1}),x=C.overscanStartIndex,k=C.overscanStopIndex,S=w.overscanStartIndex,O=w.overscanStopIndex;if(i){if(!i.hasFixedHeight())for(var B=S;B<=O;B++)if(!i.has(B,0)){x=0,k=o-1;break}if(!i.hasFixedWidth())for(var I=x;I<=k;I++)if(!i.has(0,I)){S=0,O=s-1;break}}this._childrenToDisplay=r({cellCache:this._cellCache,cellRenderer:t,columnSizeAndPositionManager:g.columnSizeAndPositionManager,columnStartIndex:x,columnStopIndex:k,deferredMeasurementCache:i,horizontalOffsetAdjustment:E,isScrolling:b,isScrollingOptOut:p,parent:this,rowSizeAndPositionManager:g.rowSizeAndPositionManager,rowStartIndex:S,rowStopIndex:O,scrollLeft:A,scrollTop:v,styleCache:this._styleCache,verticalOffsetAdjustment:_,visibleColumnIndices:m,visibleRowIndices:y}),this._columnStartIndex=x,this._columnStopIndex=k,this._rowStartIndex=S,this._rowStopIndex=O}}},{key:"_debounceScrollEnded",value:function(){var e=this.props.scrollingResetTimeInterval;this._disablePointerEventsTimeoutId&&L(this._disablePointerEventsTimeoutId),this._disablePointerEventsTimeoutId=F(this._debounceScrollEndedCallback,e)}},{key:"_handleInvalidatedGridSize",value:function(){if("number"==typeof this._deferredInvalidateColumnIndex&&"number"==typeof this._deferredInvalidateRowIndex){var e=this._deferredInvalidateColumnIndex,n=this._deferredInvalidateRowIndex;this._deferredInvalidateColumnIndex=null,this._deferredInvalidateRowIndex=null,this.recomputeGridSize({columnIndex:e,rowIndex:n})}}},{key:"_invokeOnScrollMemoizer",value:function(e){var n=this,t=e.scrollLeft,r=e.scrollTop,o=e.totalColumnsWidth,i=e.totalRowsHeight;this._onScrollMemoizer({callback:function(e){var t=e.scrollLeft,r=e.scrollTop,a=n.props,l=a.height;(0,a.onScroll)({clientHeight:l,clientWidth:a.width,scrollHeight:i,scrollLeft:t,scrollTop:r,scrollWidth:o})},indices:{scrollLeft:t,scrollTop:r}})}},{key:"_isScrolling",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return Object.hasOwnProperty.call(e,"isScrolling")?Boolean(e.isScrolling):Boolean(n.isScrolling)}},{key:"_maybeCallOnScrollbarPresenceChange",value:function(){if(this._scrollbarPresenceChanged){var e=this.props.onScrollbarPresenceChange;this._scrollbarPresenceChanged=!1,e({horizontal:this._horizontalScrollBarSize>0,size:this.state.instanceProps.scrollbarSize,vertical:this._verticalScrollBarSize>0})}}},{key:"scrollToPosition",value:function(e){var n=e.scrollLeft,r=e.scrollTop,o=t._getScrollToPositionStateUpdate({prevState:this.state,scrollLeft:n,scrollTop:r});o&&(o.needToResetStyleCache=!1,this.setState(o))}},{key:"_getCalculatedScrollLeft",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return t._getCalculatedScrollLeft(e,n)}},{key:"_updateScrollLeftForScrollToColumn",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,r=t._getScrollLeftForScrollToColumnStateUpdate(e,n);r&&(r.needToResetStyleCache=!1,this.setState(r))}},{key:"_getCalculatedScrollTop",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return t._getCalculatedScrollTop(e,n)}},{key:"_resetStyleCache",value:function(){var e=this._styleCache,n=this._cellCache,t=this.props.isScrollingOptOut;this._cellCache={},this._styleCache={};for(var r=this._rowStartIndex;r<=this._rowStopIndex;r++)for(var o=this._columnStartIndex;o<=this._columnStopIndex;o++){var i="".concat(r,"-").concat(o);this._styleCache[i]=e[i],t&&(this._cellCache[i]=n[i])}}},{key:"_updateScrollTopForScrollToRow",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,r=t._getScrollTopForScrollToRowStateUpdate(e,n);r&&(r.needToResetStyleCache=!1,this.setState(r))}}],[{key:"getDerivedStateFromProps",value:function(e,n){var r={};0===e.columnCount&&0!==n.scrollLeft||0===e.rowCount&&0!==n.scrollTop?(r.scrollLeft=0,r.scrollTop=0):(e.scrollLeft!==n.scrollLeft&&e.scrollToColumn<0||e.scrollTop!==n.scrollTop&&e.scrollToRow<0)&&Object.assign(r,t._getScrollToPositionStateUpdate({prevState:n,scrollLeft:e.scrollLeft,scrollTop:e.scrollTop}));var o,i,a=n.instanceProps;return r.needToResetStyleCache=!1,e.columnWidth===a.prevColumnWidth&&e.rowHeight===a.prevRowHeight||(r.needToResetStyleCache=!0),a.columnSizeAndPositionManager.configure({cellCount:e.columnCount,estimatedCellSize:t._getEstimatedColumnSize(e),cellSizeGetter:t._wrapSizeGetter(e.columnWidth)}),a.rowSizeAndPositionManager.configure({cellCount:e.rowCount,estimatedCellSize:t._getEstimatedRowSize(e),cellSizeGetter:t._wrapSizeGetter(e.rowHeight)}),0!==a.prevColumnCount&&0!==a.prevRowCount||(a.prevColumnCount=0,a.prevRowCount=0),e.autoHeight&&!1===e.isScrolling&&!0===a.prevIsScrolling&&Object.assign(r,{isScrolling:!1}),y({cellCount:a.prevColumnCount,cellSize:"number"==typeof a.prevColumnWidth?a.prevColumnWidth:null,computeMetadataCallback:function(){return a.columnSizeAndPositionManager.resetCell(0)},computeMetadataCallbackProps:e,nextCellsCount:e.columnCount,nextCellSize:"number"==typeof 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t={key:Math.random(),label:e.props.getInitial()};e.setState({selected:t,filterValue:e.getValueForFilter(t)},(function(){e.props.onChange(t,n),e.props.onReset()}))})),Hu(Lu(e),"_inputShortcutHandler",(function(){e.state.focused&&e._popup&&!e._popup.isVisible()&&e._clickHandler()})),Hu(Lu(e),"addHandler",(function(){var n=e.filterValue();e._hidePopup(),e.props.onAdd(n)})),Hu(Lu(e),"getLowerCaseLabel",Ku),Hu(Lu(e),"doesLabelMatch",Yu),Hu(Lu(e),"_clickHandler",(function(){e.props.disabled||(e.state.showPopup?e._hidePopup():(e.props.onBeforeOpen(),e._showPopup()))})),Hu(Lu(e),"_filterChangeHandler",(function(n){e._setFilter(n.target.value,n)})),Hu(Lu(e),"_setFilter",(function(n){var t=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{};if((!e.isInputMode()||e.state.focused)&&n!==e.state.filterValue){var r=n.replace(/^\s+/g,"");if(e.props.onFilter(r),e.props.allowAny){var o={key:Math.random(),label:r};e.setState({selected:""===r?null:o,selectedIndex:null},(function(){e.props.onSelect(o,t),e.props.onChange(o,t)}))}!e._popup.isVisible()&&e.props.onBeforeOpen(),e.setState({filterValue:r},(function(){e._showPopup()}))}})),Hu(Lu(e),"_redrawPopup",(function(){e.props.multiple&&setTimeout((function(){e.isInputMode()&&e.clearFilter(),e._showPopup()}),0)})),Hu(Lu(e),"_listSelectHandler",(function(n,t){var r=arguments.length>2&&void 0!==arguments[2]?arguments[2]:{},o=ci.isItemType.bind(null,ci.ListProps.Type.ITEM),i=ci.isItemType.bind(null,ci.ListProps.Type.CUSTOM),a=t&&("select"===t.type||"keydown"===t.type);if(a&&t.preventDefault(),(o(n)||i(n))&&!n.disabled&&!n.isResetItem)if(e.props.multiple){var l=r.tryKeepOpen;if(l||e._hidePopup(a),null==n.key)throw new Error('Multiple selection requires each item to have the "key" property');e.setState((function(r){var o,i=r.selected;r.multipleMap[n.key]?(o=i.filter((function(e){return 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0!==arguments[0])||arguments[0],t=ci.isItemType.bind(null,ci.ListProps.Type.ITEM),r=ci.isItemType.bind(null,ci.ListProps.Type.CUSTOM);e.setState((function(o){var i,a=o.selected;return n?(i=e.props.data.filter((function(e){return(t(e)||r(e))&&!e.disabled}))).filter((function(n){return!e.props.selected.find((function(e){return n.key===e.key}))})).forEach((function(n){e.props.onSelect&&e.props.onSelect(n)})):(i=[],a.forEach((function(n){e.props.onDeselect&&e.props.onDeselect(n)}))),e.props.onChange(i,event),{filterValue:"",selected:i,selectedIndex:n?e._getSelectedIndex(i,e.props.data):null,shownData:o.shownData.map((function(e){return Wu(Wu({},e),{},{checkbox:n})})),multipleMap:n?Zu(e.props.data.filter((function(e){return!e.disabled}))):{}}}),e._redrawPopup)})),Hu(Lu(e),"_onCloseAttempt",(function(n,t){e.isInputMode()&&(e.props.allowAny||(e.props.hideSelected||!e.state.selected||e.props.multiple?e.clearFilter():e.state.selected&&e.filterValue(es(e.state.selected)))),e.props.tags&&n&&n.target&&n.target.matches('[data-test="ring-tag-remove"]')||e._hidePopup(t)})),Hu(Lu(e),"clearFilter",(function(n){e._setFilter("",n)})),Hu(Lu(e),"clear",(function(n){n&&n.stopPropagation();var t=l._getEmptyValue(e.props.multiple);return e.setState({selected:t,selectedIndex:null,filterValue:""},(function(){e.props.onChange&&e.props.onChange(t,n)})),!1})),Hu(Lu(e),"popupRef",(function(n){e._popup=n})),Hu(Lu(e),"buttonRef",(function(n){e.button=n})),Hu(Lu(e),"filterRef",(function(n){e.filter=n})),e}return t=l,o=[{key:"_getEmptyValue",value:function(e){return e?[]:null}},{key:"getDerivedStateFromProps",value:function(e,n){var t=e.multiple,r=e.data,o=e.type,i=n.prevSelected,a=n.prevData,c=n.prevMultiple,u=n.filterValue,s={prevData:r,prevSelected:e.selected,prevMultiple:t};if("data"in e&&r!==a){var f=Qu(e,n,u,r),p=f.filteredData,d=f.addButton;Object.assign(s,{shownData:p,addButton:d}),n.selected&&Object.assign(s,{selectedIndex:Ju(n.selected,r,t),prevFilterValue:ns(n.selected,o,u)})}if("selected"in e&&e.selected!==i){var h=e.selected||l._getEmptyValue(t),g=Ju(h,r||a,t);Object.assign(s,{selected:h,prevFilterValue:ns(h,o,u)}),t&&function(e,n){if(!e||!n||e.length!==n.length)return!1;var t=n.reduce((function(e,n){return e[n.key]=!0,e}),{});return e.every((function(e){return t[e.key]}))}(i,h)||Object.assign(s,{selectedIndex:g})}c===t||hi()(c,t)||(s.selected=l._getEmptyValue(t));var v=Wu(Wu({},n),s).selected;if(v&&t){s.multipleMap=Zu(v);var A=Qu(e,s,u,r),b=A.filteredData,m=A.addButton;Object.assign(s,{shownData:b,addButton:m})}return s}}],(r=[{key:"componentDidUpdate",value:function(e,n){var t=this.state,r=t.showPopup,o=t.selected,i=this.props,a=i.onClose,l=i.onOpen,c=i.onChange,u=i.multiple;n.showPopup&&!r?a(o):!n.showPopup&&r&&l(),u===e.multiple||hi()(u,e.multiple)||c(o)}},{key:"getValueForFilter",value:function(e){return ns(e,this.props.type,this.state.filterValue)}},{key:"_getSelectedIndex",value:function(e,n){return Ju(e,n,this.props.multiple)}},{key:"_getResetOption",value:function(){var n=this,t=this.state.selected&&this.state.selected.length,r=this.props.tags&&this.props.tags.reset;if(!t||!r)return null;var o=this.props.tags.reset;return{isResetItem:!0,separator:o.separator,key:o.label,rgItemType:ci.ListProps.Type.CUSTOM,template:e.createElement(Li,{text:!0,className:Bu().button,"data-test":"ring-select-reset-tags-button"},o.label),glyph:o.glyph,onClick:function(e,t){n.clear(t),n.clearFilter(),n.props.onFilter(""),n.setState((function(e){return{shownData:e.shownData.slice(o.separator?2:1),multipleMap:{}}})),n._redrawPopup()}}}},{key:"_prependResetOption",value:function(e){var n=this._getResetOption(),t={rgItemType:ci.ListProps.Type.MARGIN};if(n){var r=[t,n,t];return n.separator&&r.push({rgItemType:ci.ListProps.Type.SEPARATOR}),r.concat(e)}return e}},{key:"_renderPopup",value:function(){var n=this.props.targetElement||this.node,t=this.state,r=t.showPopup,o=t.shownData,i=this._prependResetOption(o),a=null;return this.props.loading?a=this.props.loadingMessage:o.length||(a=this.props.notFoundMessage),e.createElement(Su,{data:i,message:a,toolbar:r&&this.getToolbar(),loading:this.props.loading,activeIndex:this.state.selectedIndex,hidden:!r,ref:this.popupRef,maxHeight:this.props.maxHeight,minWidth:this.props.minWidth,directions:this.props.directions,className:this.props.popupClassName,style:this.props.popupStyle,top:this.props.top,left:this.props.left,filter:!this.isInputMode()&&this.props.filter,multiple:this.props.multiple,filterValue:this.state.filterValue,anchorElement:n,onCloseAttempt:this._onCloseAttempt,onSelect:this._listSelectHandler,onSelectAll:this._listSelectAllHandler,onFilter:this._filterChangeHandler,onClear:this.clearFilter,onLoadMore:this.props.onLoadMore,isInputMode:this.isInputMode(),selected:this.state.selected,tags:this.props.tags,compact:this.props.compact,renderOptimization:this.props.renderOptimization,ringPopupTarget:this.props.ringPopupTarget,disableMoveOverflow:this.props.disableMoveOverflow,disableScrollToActive:this.props.disableScrollToActive,dir:this.props.dir,onEmptyPopupEnter:this.onEmptyPopupEnter,listId:this.listId})}},{key:"_showPopup",value:function(){if(this.node){var e=this.getListItems(this.filterValue());this.setState({showPopup:!!e.length||!this.props.allowAny,shownData:e})}}},{key:"_hidePopup",value:function(e){if(this.node&&this.state.showPopup&&(this.setState({showPopup:!1,filterValue:""}),e)){var n=this.props.targetElement||this.node.querySelector("[data-test~=ring-select__focus]");n&&n.focus()}}},{key:"getToolbar",value:function(){var n=this.props.hint,t=this.state.addButton||{},r=t.prefix,o=t.label,i=t.delayed;return this.state.addButton||n?e.createElement("div",{className:a()(Hu({},Bu().toolbar,!!this.state.addButton)),"data-test":"ring-select-toolbar"},this.state.addButton&&e.createElement(Li,{text:!0,delayed:i,className:a()(Bu().button,Bu().buttonSpaced),onClick:this.addHandler,"data-test":"ring-select-toolbar-button"},r?"".concat(r," ").concat(o):o),n&&e.createElement(ci.ListHint,{label:n,"data-test":"ring-select-toolbar-hint"})):null}},{key:"getFilterFn",value:function(){return Xu(this.props.filter)}},{key:"getListItems",value:function(e,n){var t=Qu(this.props,this.state,e,n),r=t.filteredData,o=t.addButton;return this.setState({addButton:o}),r}},{key:"filterValue",value:function(e){if("string"!=typeof e&&"number"!=typeof e)return this.state.filterValue;this.setState({filterValue:e})}},{key:"isInputMode",value:function(){return $u(this.props.type)}},{key:"_rebuildMultipleMap",value:function(e,n){e&&n&&this.setState({multipleMap:Zu(e)})}},{key:"_selectionIsEmpty",value:function(){return this.props.multiple&&!this.state.selected.length||!this.state.selected}},{key:"_getLabel",value:function(){return this.props.label||this.props.selectedLabel||"Select an option"}},{key:"_getSelectedString",value:function(){if(this.props.multiple){for(var e=[],n=0;n<this.state.selected.length;n++)e.push(es(this.state.selected[n]));return e.filter(Boolean).join(", ")}return es(this.state.selected)}},{key:"_getIcons",value:function(){var n=this.state.selected,t=this.props,r=t.disabled,o=t.clear,i=t.hideArrow,a=[];return null!=n&&n.icon&&a.push(e.createElement("button",{title:"Toggle options popup",type:"button",className:Bu().selectedIcon,key:"selected",disabled:this.props.disabled,onClick:this._clickHandler,style:{backgroundImage:"url(".concat(n.icon,")")}})),!o||r||this._selectionIsEmpty()||a.push(e.createElement(Li,{title:"Clear selection","data-test":"ring-clear-select",className:Bu().clearIcon,key:"close",disabled:this.props.disabled,onClick:this.clear,icon:pi()})),i||a.push(e.createElement(Li,{title:"Toggle options popup",className:Bu().chevron,iconClassName:Bu().chevronIcon,icon:si(),key:"hide",disabled:this.props.disabled,onClick:this._clickHandler})),a}},{key:"_getAvatar",value:function(){return this.state.selected&&(this.state.selected.avatar||this.state.selected.showGeneratedAvatar)&&e.createElement(qt,{className:Bu().avatar,url:this.state.selected.avatar,username:this.state.selected.username,size:Gt})}},{key:"getShortcutsMap",value:function(){return{enter:this._onEnter,esc:this._onEsc,up:this._inputShortcutHandler,down:this._inputShortcutHandler,right:Gu,left:Gu,"shift+up":Gu,"shift+down":Gu,space:Gu}}},{key:"renderSelect",value:function(n){var t,r,o,i,l=this.props["data-test"],c=this.state.shortcutsEnabled,u=a()(Bu().select,"ring-js-shortcuts",this.props.className,(Hu(t={},Bu()["size".concat(this.props.size)],this.props.type!==qu.INLINE),Hu(t,Bu().disabled,this.props.disabled),t)),s=this._getIcons(),f=Vu(s.length),p=e.createElement("span",{className:Bu().icons},s),d=this.state.showPopup?{"aria-owns":this.listId,"aria-activedescendant":n}:{};switch(this.props.type){case qu.INPUT_WITHOUT_CONTROLS:case qu.INPUT:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().inputMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement(ul,Tu({},d,{autoComplete:"off",id:this.props.id,onClick:this._clickHandler,inputRef:this.filterRef,disabled:this.props.disabled,value:this.state.filterValue,borderless:this.props.type===qu.INPUT_WITHOUT_CONTROLS,style:f,size:ll.FULL,onChange:this._filterChangeHandler,onFocus:this._focusHandler,onBlur:this._blurHandler,label:this.props.type===qu.INPUT?this._getLabel():null,placeholder:this.props.inputPlaceholder,onKeyDown:this.props.onKeyDown,"data-test":"ring-select__focus",enableShortcuts:c?Object.keys(Wu(Wu({},this.getShortcutsMap()),null===(r=this._popup)||void 0===r||null===(o=r.list)||void 0===o?void 0:o.shortcutsMap)):void 0})),this.props.type===qu.INPUT&&p,this._renderPopup());case qu.BUTTON:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().buttonMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement("div",{className:Bu().buttonContainer},e.createElement(Li,Tu({},d,{id:this.props.id,onClick:this._clickHandler,className:a()(this.props.buttonClassName,Bu().buttonValue,Hu({},Bu().buttonValueOpen,this.state.showPopup)),disabled:this.props.disabled,style:f,"data-test":"ring-select__button ring-select__focus"}),this._getAvatar(),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),p),this._renderPopup());case qu.MATERIAL:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().materialMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),!this._selectionIsEmpty()&&this.props.selectedLabel&&e.createElement("span",{className:Bu().selectedLabel},this.props.selectedLabel),e.createElement("button",Tu({},d,{id:this.props.id,onClick:this._clickHandler,type:"button",disabled:this.props.disabled,className:a()(this.props.buttonClassName,Bu().value,(i={},Hu(i,Bu().open,this.state.showPopup),Hu(i,Bu().label,this._selectionIsEmpty()),i)),"aria-label":this._getLabel(),style:f,"data-test":"ring-select__focus",ref:this.buttonRef}),this._getAvatar(),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),p,this._renderPopup());case qu.INLINE:return e.createElement("div",{className:u,ref:this.nodeRef,"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement(Vi,Tu({},d,{id:this.props.id,onClick:this._clickHandler,"data-test":"ring-select__focus",disabled:this.props.disabled,active:this.state.showPopup}),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),this._renderPopup());default:return this.props.customAnchor?e.createElement(e.Fragment,null,c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),this.props.customAnchor({wrapperProps:{ref:this.nodeRef,"data-test":Ne("ring-select",l)},buttonProps:Wu(Wu({},d),{},{id:this.props.id,onClick:this._clickHandler,disabled:this.props.disabled,children:this._selectionIsEmpty()?this._getLabel():this._getSelectedString(),"data-test":"ring-select_focus"}),popup:this._renderPopup()})):e.createElement("span",{id:this.props.id,ref:this.nodeRef,"data-test":"ring-select"},this._renderPopup())}}},{key:"render",value:function(){var n=this;return e.createElement(li.Provider,null,e.createElement(li.ValueContext.Consumer,null,(function(e){return n.renderSelect(e)})))}}])&&Ru(t.prototype,r),o&&Ru(t,o),l}(e.Component);Hu(ts,"propTypes",{className:o().string,buttonClassName:o().string,id:o().string,multiple:o().oneOfType([o().bool,o().object]),allowAny:o().bool,filter:o().oneOfType([o().bool,o().object]),getInitial:o().func,onClose:o().func,onOpen:o().func,onDone:o().func,onFilter:o().func,onChange:o().func,onReset:o().func,onLoadMore:o().func,onAdd:o().func,onBeforeOpen:o().func,onSelect:o().func,onDeselect:o().func,onFocus:o().func,onBlur:o().func,onKeyDown:o().func,selected:o().oneOfType([o().object,o().array]),data:o().array,tags:o().object,targetElement:o().object,loading:o().bool,loadingMessage:o().string,notFoundMessage:o().string,maxHeight:o().number,minWidth:o().number,directions:o().array,popupClassName:o().string,popupStyle:o().object,top:o().number,left:o().number,renderOptimization:o().bool,ringPopupTarget:o().string,hint:ci.ListHint.propTypes.label,add:o().object,type:o().oneOf(Object.values(qu)),disabled:o().bool,hideSelected:o().bool,label:o().string,selectedLabel:o().oneOfType([o().string,o().arrayOf(o().node),o().node]),inputPlaceholder:o().string,clear:o().bool,hideArrow:o().bool,compact:o().bool,size:o().oneOf(Object.values(ll)),theme:o().string,customAnchor:o().func,disableMoveOverflow:o().bool,disableScrollToActive:o().bool,dir:o().oneOf(["ltr","rtl"]),"data-test":o().string}),Hu(ts,"defaultProps",{data:[],filter:!1,multiple:!1,clear:!1,loading:!1,disabled:!1,loadingMessage:"Loading...",notFoundMessage:"No options found",type:qu.MATERIAL,size:ll.M,targetElement:null,hideSelected:!1,allowAny:!1,hideArrow:!1,maxHeight:600,directions:[qa.PopupProps.Directions.BOTTOM_RIGHT,qa.PopupProps.Directions.BOTTOM_LEFT,qa.PopupProps.Directions.TOP_LEFT,qa.PopupProps.Directions.TOP_RIGHT],selected:null,label:"",selectedLabel:"",inputPlaceholder:"",hint:null,shortcutsEnabled:!1,onBeforeOpen:Gu,onLoadMore:Gu,onOpen:Gu,onClose:Gu,onFilter:Gu,onFocus:Gu,onBlur:Gu,onKeyDown:Gu,onSelect:Gu,onDeselect:Gu,onChange:Gu,onAdd:Gu,onDone:Gu,onReset:Gu,tags:null,onRemoveTag:Gu,ringPopupTarget:null,dir:"ltr"}),Hu(ts,"Type",qu),Hu(ts,"Size",ll),Hu(ts,"Theme",_i);(function(e){var n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{captureNode:!1},t=n.captureNode;if(t)throw new Error('rerenderHOC: captureNode={true} is deprecated. 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+//# sourceMappingURL=main.js.map
\ No newline at end of file
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/navigation-loader.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/navigation-loader.js
new file mode 100644
index 00000000..3df7ac8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/navigation-loader.js
@@ -0,0 +1,95 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+navigationPageText = fetch(pathToRoot + "navigation.html").then(response => response.text())
+
+displayNavigationFromPage = () => {
+    navigationPageText.then(data => {
+        document.getElementById("sideMenu").innerHTML = data;
+    }).then(() => {
+        document.querySelectorAll(".overview > a").forEach(link => {
+            link.setAttribute("href", pathToRoot + link.getAttribute("href"));
+        })
+    }).then(() => {
+        document.querySelectorAll(".sideMenuPart").forEach(nav => {
+            if (!nav.classList.contains("hidden"))
+                nav.classList.add("hidden")
+        })
+    }).then(() => {
+        revealNavigationForCurrentPage()
+    }).then(() => {
+        scrollNavigationToSelectedElement()
+    })
+    document.querySelectorAll('.footer a[href^="#"]').forEach(anchor => {
+        anchor.addEventListener('click', function (e) {
+            e.preventDefault();
+            document.querySelector(this.getAttribute('href')).scrollIntoView({
+                behavior: 'smooth'
+            });
+        });
+    });
+}
+
+revealNavigationForCurrentPage = () => {
+    let pageId = document.getElementById("content").attributes["pageIds"].value.toString();
+    let parts = document.querySelectorAll(".sideMenuPart");
+    let found = 0;
+    do {
+        parts.forEach(part => {
+            if (part.attributes['pageId'].value.indexOf(pageId) !== -1 && found === 0) {
+                found = 1;
+                if (part.classList.contains("hidden")) {
+                    part.classList.remove("hidden");
+                    part.setAttribute('data-active', "");
+                }
+                revealParents(part)
+            }
+        });
+        pageId = pageId.substring(0, pageId.lastIndexOf("/"))
+    } while (pageId.indexOf("/") !== -1 && found === 0)
+};
+revealParents = (part) => {
+    if (part.classList.contains("sideMenuPart")) {
+        if (part.classList.contains("hidden"))
+            part.classList.remove("hidden");
+        revealParents(part.parentNode)
+    }
+};
+
+scrollNavigationToSelectedElement = () => {
+    let selectedElement = document.querySelector('div.sideMenuPart[data-active]')
+    if (selectedElement == null) { // nothing selected, probably just the main page opened
+        return
+    }
+
+    let hasIcon = selectedElement.querySelectorAll(":scope > div.overview span.nav-icon").length > 0
+
+    // for instance enums also have children and are expandable, but are not package/module elements
+    let isPackageElement = selectedElement.children.length > 1 && !hasIcon
+    if (isPackageElement) {
+        // if package is selected or linked, it makes sense to align it to top
+        // so that you can see all the members it contains
+        selectedElement.scrollIntoView(true)
+    } else {
+        // if a member within a package is linked, it makes sense to center it since it,
+        // this should make it easier to look at surrounding members
+        selectedElement.scrollIntoView({
+            behavior: 'auto',
+            block: 'center',
+            inline: 'center'
+        })
+    }
+}
+
+/*
+    This is a work-around for safari being IE of our times.
+    It doesn't fire a DOMContentLoaded, presumabely because eventListener is added after it wants to do it
+*/
+if (document.readyState == 'loading') {
+    window.addEventListener('DOMContentLoaded', () => {
+        displayNavigationFromPage()
+    })
+} else {
+    displayNavigationFromPage()
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/pages.json b/docs/dokka/v0.2.0/older/v0.1.0/scripts/pages.json
new file mode 100644
index 00000000..74c7e50a
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/pages.json
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diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/platform-content-handler.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/platform-content-handler.js
new file mode 100644
index 00000000..811c4788
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/platform-content-handler.js
@@ -0,0 +1,400 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+filteringContext = {
+    dependencies: {},
+    restrictedDependencies: [],
+    activeFilters: []
+}
+let highlightedAnchor;
+let topNavbarOffset;
+let instances = [];
+let sourcesetNotification;
+
+const samplesDarkThemeName = 'darcula'
+const samplesLightThemeName = 'idea'
+
+window.addEventListener('load', () => {
+    document.querySelectorAll("div[data-platform-hinted]")
+        .forEach(elem => elem.addEventListener('click', (event) => togglePlatformDependent(event, elem)))
+    const filterSection = document.getElementById('filter-section')
+    if (filterSection) {
+        filterSection.addEventListener('click', (event) => filterButtonHandler(event))
+        initializeFiltering()
+    }
+    initTabs()
+    handleAnchor()
+    initHidingLeftNavigation()
+    topNavbarOffset = document.getElementById('navigation-wrapper')
+    darkModeSwitch()
+})
+
+const darkModeSwitch = () => {
+    const localStorageKey = "dokka-dark-mode"
+    const storage = localStorage.getItem(localStorageKey)
+    const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+    const darkModeEnabled = storage ? JSON.parse(storage) : osDarkSchemePreferred
+    const element = document.getElementById("theme-toggle-button")
+    initPlayground(darkModeEnabled ? samplesDarkThemeName : samplesLightThemeName)
+
+    element.addEventListener('click', () => {
+        const enabledClasses = document.getElementsByTagName("html")[0].classList
+        enabledClasses.toggle("theme-dark")
+
+        //if previously we had saved dark theme then we set it to light as this is what we save in local storage
+        const darkModeEnabled = enabledClasses.contains("theme-dark")
+        if (darkModeEnabled) {
+            initPlayground(samplesDarkThemeName)
+        } else {
+            initPlayground(samplesLightThemeName)
+        }
+        localStorage.setItem(localStorageKey, JSON.stringify(darkModeEnabled))
+    })
+}
+
+const initPlayground = (theme) => {
+    if (!samplesAreEnabled()) return
+    instances.forEach(instance => instance.destroy())
+    instances = []
+
+    // Manually tag code fragments as not processed by playground since we also manually destroy all of its instances
+    document.querySelectorAll('code.runnablesample').forEach(node => {
+        node.removeAttribute("data-kotlin-playground-initialized");
+    })
+
+    KotlinPlayground('code.runnablesample', {
+        getInstance: playgroundInstance => {
+            instances.push(playgroundInstance)
+        },
+        theme: theme
+    });
+}
+
+// We check if type is accessible from the current scope to determine if samples script is present
+// As an alternative we could extract this samples-specific script to new js file but then we would handle dark mode in 2 separate files which is not ideal
+const samplesAreEnabled = () => {
+    try {
+        KotlinPlayground
+        return true
+    } catch (e) {
+        return false
+    }
+}
+
+
+const initHidingLeftNavigation = () => {
+    document.getElementById("menu-toggle").onclick = function (event) {
+        //Events need to be prevented from bubbling since they will trigger next handler
+        event.preventDefault();
+        event.stopPropagation();
+        event.stopImmediatePropagation();
+        document.getElementById("leftColumn").classList.toggle("open");
+    }
+
+    document.getElementById("main").onclick = () => {
+        document.getElementById("leftColumn").classList.remove("open");
+    }
+}
+
+// Hash change is needed in order to allow for linking inside the same page with anchors
+// If this is not present user is forced to refresh the site in order to use an anchor
+window.onhashchange = handleAnchor
+
+function scrollToElementInContent(element) {
+    const scrollToElement = () => document.getElementById('main').scrollTo({
+        top: element.offsetTop - topNavbarOffset.offsetHeight,
+        behavior: "smooth"
+    })
+
+    const waitAndScroll = () => {
+        setTimeout(() => {
+            if (topNavbarOffset) {
+                scrollToElement()
+            } else {
+                waitForScroll()
+            }
+        }, 50)
+    }
+
+    if (topNavbarOffset) {
+        scrollToElement()
+    } else {
+        waitAndScroll()
+    }
+}
+
+
+function handleAnchor() {
+    if (highlightedAnchor) {
+        highlightedAnchor.classList.remove('anchor-highlight')
+        highlightedAnchor = null;
+    }
+
+    let searchForContentTarget = function (element) {
+        if (element && element.hasAttribute) {
+            if (element.hasAttribute("data-togglable")) return element.getAttribute("data-togglable");
+            else return searchForContentTarget(element.parentNode)
+        } else return null
+    }
+
+    let findAnyTab = function (target) {
+    	let result = null
+        document.querySelectorAll('div[tabs-section] > button[data-togglable]')
+        .forEach(node => {
+            if(node.getAttribute("data-togglable").split(",").includes(target)) {
+            	result = node
+            }
+        })
+        return result
+    }
+
+    let anchor = window.location.hash
+    if (anchor != "") {
+        anchor = anchor.substring(1)
+        let element = document.querySelector('a[data-name="' + anchor + '"]')
+
+        if (element) {
+            const content = element.nextElementSibling
+            const contentStyle = window.getComputedStyle(content)
+            if(contentStyle.display == 'none') {
+		 let tab = findAnyTab(searchForContentTarget(content))
+		 if (tab) {
+		     toggleSections(tab)
+		 }
+            }
+
+            if (content) {
+                content.classList.add('anchor-highlight')
+                highlightedAnchor = content
+            }
+
+            scrollToElementInContent(element)
+        }
+    }
+}
+
+function initTabs() {
+    // we could have only a single type of data - classlike or package
+    const mainContent = document.querySelector('.main-content');
+    const type = mainContent ? mainContent.getAttribute("data-page-type") : null;
+    const localStorageKey = "active-tab-" + type;
+    document.querySelectorAll('div[tabs-section]').forEach(element => {
+        showCorrespondingTabBody(element);
+        element.addEventListener('click', ({target}) => {
+            const togglable = target ? target.getAttribute("data-togglable") : null;
+            if (!togglable) return;
+
+            localStorage.setItem(localStorageKey, JSON.stringify(togglable));
+            toggleSections(target);
+        });
+    });
+
+    const cached = localStorage.getItem(localStorageKey);
+    if (!cached) return;
+
+    const tab = document.querySelector(
+        'div[tabs-section] > button[data-togglable="' + JSON.parse(cached) + '"]'
+    );
+    if (!tab) return;
+
+    toggleSections(tab);
+}
+
+function showCorrespondingTabBody(element) {
+    const buttonWithKey = element.querySelector("button[data-active]")
+    if (buttonWithKey) {
+        toggleSections(buttonWithKey)
+    }
+}
+
+function filterButtonHandler(event) {
+    if (event.target.tagName == "BUTTON" && event.target.hasAttribute("data-filter")) {
+        let sourceset = event.target.getAttribute("data-filter")
+        if (filteringContext.activeFilters.indexOf(sourceset) != -1) {
+            filterSourceset(sourceset)
+        } else {
+            unfilterSourceset(sourceset)
+        }
+    }
+}
+
+function initializeFiltering() {
+    filteringContext.dependencies = JSON.parse(sourceset_dependencies)
+    document.querySelectorAll("#filter-section > button")
+        .forEach(p => filteringContext.restrictedDependencies.push(p.getAttribute("data-filter")))
+    Object.keys(filteringContext.dependencies).forEach(p => {
+        filteringContext.dependencies[p] = filteringContext.dependencies[p]
+            .filter(q => -1 !== filteringContext.restrictedDependencies.indexOf(q))
+    })
+    let cached = window.localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        filteringContext.activeFilters = filteringContext.restrictedDependencies
+            .filter(q => parsed.indexOf(q) == -1)
+    } else {
+        filteringContext.activeFilters = filteringContext.restrictedDependencies
+    }
+    refreshFiltering()
+}
+
+function filterSourceset(sourceset) {
+    filteringContext.activeFilters = filteringContext.activeFilters.filter(p => p != sourceset)
+    refreshFiltering()
+    addSourcesetFilterToCache(sourceset)
+}
+
+function unfilterSourceset(sourceset) {
+    if (filteringContext.activeFilters.length == 0) {
+        filteringContext.activeFilters = filteringContext.dependencies[sourceset].concat([sourceset])
+        refreshFiltering()
+        filteringContext.dependencies[sourceset].concat([sourceset]).forEach(p => removeSourcesetFilterFromCache(p))
+    } else {
+        filteringContext.activeFilters.push(sourceset)
+        refreshFiltering()
+        removeSourcesetFilterFromCache(sourceset)
+    }
+
+}
+
+function addSourcesetFilterToCache(sourceset) {
+    let cached = localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        localStorage.setItem('inactive-filters', JSON.stringify(parsed.concat([sourceset])))
+    } else {
+        localStorage.setItem('inactive-filters', JSON.stringify([sourceset]))
+    }
+}
+
+function removeSourcesetFilterFromCache(sourceset) {
+    let cached = localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        localStorage.setItem('inactive-filters', JSON.stringify(parsed.filter(p => p != sourceset)))
+    }
+}
+
+function toggleSections(target) {
+    const activateTabs = (containerClass) => {
+        for (const element of document.getElementsByClassName(containerClass)) {
+            for (const child of element.children) {
+                if (child.getAttribute("data-togglable") === target.getAttribute("data-togglable")) {
+                    child.setAttribute("data-active", "")
+                } else {
+                    child.removeAttribute("data-active")
+                }
+            }
+        }
+    }
+    const toggleTargets = target.getAttribute("data-togglable").split(",")
+    const activateTabsBody = (containerClass) => {
+        document.querySelectorAll("." + containerClass + " *[data-togglable]")
+            .forEach(child => {
+                    if (toggleTargets.includes(child.getAttribute("data-togglable"))) {
+                        child.setAttribute("data-active", "")
+                    } else if(!child.classList.contains("sourceset-dependent-content")) { // data-togglable is used to switch source set as well, ignore it
+                        child.removeAttribute("data-active")
+                    }
+            })
+    }
+    activateTabs("tabs-section")
+    activateTabsBody("tabs-section-body")
+}
+
+function togglePlatformDependent(e, container) {
+    let target = e.target
+    if (target.tagName != 'BUTTON') return;
+    let index = target.getAttribute('data-toggle')
+
+    for (let child of container.children) {
+        if (child.hasAttribute('data-toggle-list')) {
+            for (let bm of child.children) {
+                if (bm == target) {
+                    bm.setAttribute('data-active', "")
+                } else if (bm != target) {
+                    bm.removeAttribute('data-active')
+                }
+            }
+        } else if (child.getAttribute('data-togglable') == index) {
+            child.setAttribute('data-active', "")
+        } else {
+            child.removeAttribute('data-active')
+        }
+    }
+}
+
+function refreshFiltering() {
+    let sourcesetList = filteringContext.activeFilters
+    document.querySelectorAll("[data-filterable-set]")
+        .forEach(
+            elem => {
+                let platformList = elem.getAttribute("data-filterable-set").split(',').filter(v => -1 !== sourcesetList.indexOf(v))
+                elem.setAttribute("data-filterable-current", platformList.join(','))
+            }
+        )
+    refreshFilterButtons()
+    refreshPlatformTabs()
+    refreshNoContentNotification()
+    refreshPlaygroundSamples()
+}
+
+function refreshPlaygroundSamples() {
+    document.querySelectorAll('code.runnablesample').forEach(node => {
+        const playground = node.KotlinPlayground;
+        /* Some samples may be hidden by filter, they have 0px height  for visible code area
+         * after rendering. Call this method for re-calculate code area height */
+        playground && playground.view.codemirror.refresh();
+    });
+}
+
+function refreshNoContentNotification() {
+    const element = document.getElementsByClassName("main-content")[0]
+    if(filteringContext.activeFilters.length === 0){
+        element.style.display = "none";
+
+        const appended = document.createElement("div")
+        appended.className = "filtered-message"
+        appended.innerText = "All documentation is filtered, please adjust your source set filters in top-right corner of the screen"
+        sourcesetNotification = appended
+        element.parentNode.prepend(appended)
+    } else {
+        if(sourcesetNotification) sourcesetNotification.remove()
+        element.style.display = "block"
+    }
+}
+
+function refreshPlatformTabs() {
+    document.querySelectorAll(".platform-hinted > .platform-bookmarks-row").forEach(
+        p => {
+            let active = false;
+            let firstAvailable = null
+            p.childNodes.forEach(
+                element => {
+                    if (element.getAttribute("data-filterable-current") != '') {
+                        if (firstAvailable == null) {
+                            firstAvailable = element
+                        }
+                        if (element.hasAttribute("data-active")) {
+                            active = true;
+                        }
+                    }
+                }
+            )
+            if (active == false && firstAvailable) {
+                firstAvailable.click()
+            }
+        }
+    )
+}
+
+function refreshFilterButtons() {
+    document.querySelectorAll("#filter-section > button")
+        .forEach(f => {
+            if (filteringContext.activeFilters.indexOf(f.getAttribute("data-filter")) != -1) {
+                f.setAttribute("data-active", "")
+            } else {
+                f.removeAttribute("data-active")
+            }
+        })
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/prism.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/prism.js
new file mode 100644
index 00000000..07423626
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/prism.js
@@ -0,0 +1,22 @@
+/* PrismJS 1.29.0
+https://prismjs.com/download.html#themes=prism&languages=markup+css+clike+javascript+java+javadoc+javadoclike+kotlin&plugins=keep-markup */
+var _self="undefined"!=typeof window?window:"undefined"!=typeof WorkerGlobalScope&&self instanceof WorkerGlobalScope?self:{},Prism=function(e){var n=/(?:^|\s)lang(?:uage)?-([\w-]+)(?=\s|$)/i,t=0,r={},a={manual:e.Prism&&e.Prism.manual,disableWorkerMessageHandler:e.Prism&&e.Prism.disableWorkerMessageHandler,util:{encode:function e(n){return n instanceof i?new i(n.type,e(n.content),n.alias):Array.isArray(n)?n.map(e):n.replace(/&/g,"&amp;").replace(/</g,"&lt;").replace(/\u00a0/g," ")},type:function(e){return Object.prototype.toString.call(e).slice(8,-1)},objId:function(e){return e.__id||Object.defineProperty(e,"__id",{value:++t}),e.__id},clone:function e(n,t){var r,i;switch(t=t||{},a.util.type(n)){case"Object":if(i=a.util.objId(n),t[i])return t[i];for(var l in r={},t[i]=r,n)n.hasOwnProperty(l)&&(r[l]=e(n[l],t));return r;case"Array":return i=a.util.objId(n),t[i]?t[i]:(r=[],t[i]=r,n.forEach((function(n,a){r[a]=e(n,t)})),r);default:return n}},getLanguage:function(e){for(;e;){var t=n.exec(e.className);if(t)return t[1].toLowerCase();e=e.parentElement}return"none"},setLanguage:function(e,t){e.className=e.className.replace(RegExp(n,"gi"),""),e.classList.add("language-"+t)},currentScript:function(){if("undefined"==typeof document)return null;if("currentScript"in document)return document.currentScript;try{throw new Error}catch(r){var e=(/at [^(\r\n]*\((.*):[^:]+:[^:]+\)$/i.exec(r.stack)||[])[1];if(e){var n=document.getElementsByTagName("script");for(var t in n)if(n[t].src==e)return n[t]}return null}},isActive:function(e,n,t){for(var r="no-"+n;e;){var a=e.classList;if(a.contains(n))return!0;if(a.contains(r))return!1;e=e.parentElement}return!!t}},languages:{plain:r,plaintext:r,text:r,txt:r,extend:function(e,n){var t=a.util.clone(a.languages[e]);for(var r in n)t[r]=n[r];return t},insertBefore:function(e,n,t,r){var i=(r=r||a.languages)[e],l={};for(var o in i)if(i.hasOwnProperty(o)){if(o==n)for(var s in 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no grammar.');return r.tokens=a.tokenize(r.code,r.grammar),a.hooks.run("after-tokenize",r),i.stringify(a.util.encode(r.tokens),r.language)},tokenize:function(e,n){var t=n.rest;if(t){for(var r in t)n[r]=t[r];delete n.rest}var a=new s;return u(a,a.head,e),o(e,a,n,a.head,0),function(e){for(var n=[],t=e.head.next;t!==e.tail;)n.push(t.value),t=t.next;return n}(a)},hooks:{all:{},add:function(e,n){var t=a.hooks.all;t[e]=t[e]||[],t[e].push(n)},run:function(e,n){var t=a.hooks.all[e];if(t&&t.length)for(var r,i=0;r=t[i++];)r(n)}},Token:i};function i(e,n,t,r){this.type=e,this.content=n,this.alias=t,this.length=0|(r||"").length}function l(e,n,t,r){e.lastIndex=n;var a=e.exec(t);if(a&&r&&a[1]){var i=a[1].length;a.index+=i,a[0]=a[0].slice(i)}return a}function o(e,n,t,r,s,g){for(var f in t)if(t.hasOwnProperty(f)&&t[f]){var h=t[f];h=Array.isArray(h)?h:[h];for(var d=0;d<h.length;++d){if(g&&g.cause==f+","+d)return;var v=h[d],p=v.inside,m=!!v.lookbehind,y=!!v.greedy,k=v.alias;if(y&&!v.pattern.global){var x=v.pattern.toString().match(/[imsuy]*$/)[0];v.pattern=RegExp(v.pattern.source,x+"g")}for(var b=v.pattern||v,w=r.next,A=s;w!==n.tail&&!(g&&A>=g.reach);A+=w.value.length,w=w.next){var E=w.value;if(n.length>e.length)return;if(!(E instanceof i)){var P,L=1;if(y){if(!(P=l(b,A,e,m))||P.index>=e.length)break;var S=P.index,O=P.index+P[0].length,j=A;for(j+=w.value.length;S>=j;)j+=(w=w.next).value.length;if(A=j-=w.value.length,w.value instanceof i)continue;for(var C=w;C!==n.tail&&(j<O||"string"==typeof C.value);C=C.next)L++,j+=C.value.length;L--,E=e.slice(A,j),P.index-=A}else if(!(P=l(b,0,E,m)))continue;S=P.index;var N=P[0],_=E.slice(0,S),M=E.slice(S+N.length),W=A+E.length;g&&W>g.reach&&(g.reach=W);var z=w.prev;if(_&&(z=u(n,z,_),A+=_.length),c(n,z,L),w=u(n,z,new i(f,p?a.tokenize(N,p):N,k,N)),M&&u(n,w,M),L>1){var I={cause:f+","+d,reach:W};o(e,n,t,w.prev,A,I),g&&I.reach>g.reach&&(g.reach=I.reach)}}}}}}function s(){var e={value:null,prev:null,next:null},n={value:null,prev:e,next:null};e.next=n,this.head=e,this.tail=n,this.length=0}function u(e,n,t){var r=n.next,a={value:t,prev:n,next:r};return n.next=a,r.prev=a,e.length++,a}function c(e,n,t){for(var r=n.next,a=0;a<t&&r!==e.tail;a++)r=r.next;n.next=r,r.prev=n,e.length-=a}if(e.Prism=a,i.stringify=function e(n,t){if("string"==typeof n)return n;if(Array.isArray(n)){var r="";return n.forEach((function(n){r+=e(n,t)})),r}var i={type:n.type,content:e(n.content,t),tag:"span",classes:["token",n.type],attributes:{},language:t},l=n.alias;l&&(Array.isArray(l)?Array.prototype.push.apply(i.classes,l):i.classes.push(l)),a.hooks.run("wrap",i);var o="";for(var s in i.attributes)o+=" "+s+'="'+(i.attributes[s]||"").replace(/"/g,"&quot;")+'"';return"<"+i.tag+' class="'+i.classes.join(" ")+'"'+o+">"+i.content+"</"+i.tag+">"},!e.document)return e.addEventListener?(a.disableWorkerMessageHandler||e.addEventListener("message",(function(n){var t=JSON.parse(n.data),r=t.language,i=t.code,l=t.immediateClose;e.postMessage(a.highlight(i,a.languages[r],r)),l&&e.close()}),!1),a):a;var g=a.util.currentScript();function f(){a.manual||a.highlightAll()}if(g&&(a.filename=g.src,g.hasAttribute("data-manual")&&(a.manual=!0)),!a.manual){var h=document.readyState;"loading"===h||"interactive"===h&&g&&g.defer?document.addEventListener("DOMContentLoaded",f):window.requestAnimationFrame?window.requestAnimationFrame(f):window.setTimeout(f,16)}return a}(_self);"undefined"!=typeof module&&module.exports&&(module.exports=Prism),"undefined"!=typeof global&&(global.Prism=Prism);
+Prism.languages.markup={comment:{pattern:/<!--(?:(?!<!--)[\s\S])*?-->/,greedy:!0},prolog:{pattern:/<\?[\s\S]+?\?>/,greedy:!0},doctype:{pattern:/<!DOCTYPE(?:[^>"'[\]]|"[^"]*"|'[^']*')+(?:\[(?:[^<"'\]]|"[^"]*"|'[^']*'|<(?!!--)|<!--(?:[^-]|-(?!->))*-->)*\]\s*)?>/i,greedy:!0,inside:{"internal-subset":{pattern:/(^[^\[]*\[)[\s\S]+(?=\]>$)/,lookbehind:!0,greedy:!0,inside:null},string:{pattern:/"[^"]*"|'[^']*'/,greedy:!0},punctuation:/^<!|>$|[[\]]/,"doctype-tag":/^DOCTYPE/i,name:/[^\s<>'"]+/}},cdata:{pattern:/<!\[CDATA\[[\s\S]*?\]\]>/i,greedy:!0},tag:{pattern:/<\/?(?!\d)[^\s>\/=$<%]+(?:\s(?:\s*[^\s>\/=]+(?:\s*=\s*(?:"[^"]*"|'[^']*'|[^\s'">=]+(?=[\s>]))|(?=[\s/>])))+)?\s*\/?>/,greedy:!0,inside:{tag:{pattern:/^<\/?[^\s>\/]+/,inside:{punctuation:/^<\/?/,namespace:/^[^\s>\/:]+:/}},"special-attr":[],"attr-value":{pattern:/=\s*(?:"[^"]*"|'[^']*'|[^\s'">=]+)/,inside:{punctuation:[{pattern:/^=/,alias:"attr-equals"},{pattern:/^(\s*)["']|["']$/,lookbehind:!0}]}},punctuation:/\/?>/,"attr-name":{pattern:/[^\s>\/]+/,inside:{namespace:/^[^\s>\/:]+:/}}}},entity:[{pattern:/&[\da-z]{1,8};/i,alias:"named-entity"},/&#x?[\da-f]{1,8};/i]},Prism.languages.markup.tag.inside["attr-value"].inside.entity=Prism.languages.markup.entity,Prism.languages.markup.doctype.inside["internal-subset"].inside=Prism.languages.markup,Prism.hooks.add("wrap",(function(a){"entity"===a.type&&(a.attributes.title=a.content.replace(/&amp;/,"&"))})),Object.defineProperty(Prism.languages.markup.tag,"addInlined",{value:function(a,e){var s={};s["language-"+e]={pattern:/(^<!\[CDATA\[)[\s\S]+?(?=\]\]>$)/i,lookbehind:!0,inside:Prism.languages[e]},s.cdata=/^<!\[CDATA\[|\]\]>$/i;var t={"included-cdata":{pattern:/<!\[CDATA\[[\s\S]*?\]\]>/i,inside:s}};t["language-"+e]={pattern:/[\s\S]+/,inside:Prism.languages[e]};var n={};n[a]={pattern:RegExp("(<__[^>]*>)(?:<!\\[CDATA\\[(?:[^\\]]|\\](?!\\]>))*\\]\\]>|(?!<!\\[CDATA\\[)[^])*?(?=</__>)".replace(/__/g,(function(){return a})),"i"),lookbehind:!0,greedy:!0,inside:t},Prism.languages.insertBefore("markup","cdata",n)}}),Object.defineProperty(Prism.languages.markup.tag,"addAttribute",{value:function(a,e){Prism.languages.markup.tag.inside["special-attr"].push({pattern:RegExp("(^|[\"'\\s])(?:"+a+")\\s*=\\s*(?:\"[^\"]*\"|'[^']*'|[^\\s'\">=]+(?=[\\s>]))","i"),lookbehind:!0,inside:{"attr-name":/^[^\s=]+/,"attr-value":{pattern:/=[\s\S]+/,inside:{value:{pattern:/(^=\s*(["']|(?!["'])))\S[\s\S]*(?=\2$)/,lookbehind:!0,alias:[e,"language-"+e],inside:Prism.languages[e]},punctuation:[{pattern:/^=/,alias:"attr-equals"},/"|'/]}}}})}}),Prism.languages.html=Prism.languages.markup,Prism.languages.mathml=Prism.languages.markup,Prism.languages.svg=Prism.languages.markup,Prism.languages.xml=Prism.languages.extend("markup",{}),Prism.languages.ssml=Prism.languages.xml,Prism.languages.atom=Prism.languages.xml,Prism.languages.rss=Prism.languages.xml;
+!function(s){var e=/(?:"(?:\\(?:\r\n|[\s\S])|[^"\\\r\n])*"|'(?:\\(?:\r\n|[\s\S])|[^'\\\r\n])*')/;s.languages.css={comment:/\/\*[\s\S]*?\*\//,atrule:{pattern:RegExp("@[\\w-](?:[^;{\\s\"']|\\s+(?!\\s)|"+e.source+")*?(?:;|(?=\\s*\\{))"),inside:{rule:/^@[\w-]+/,"selector-function-argument":{pattern:/(\bselector\s*\(\s*(?![\s)]))(?:[^()\s]|\s+(?![\s)])|\((?:[^()]|\([^()]*\))*\))+(?=\s*\))/,lookbehind:!0,alias:"selector"},keyword:{pattern:/(^|[^\w-])(?:and|not|only|or)(?![\w-])/,lookbehind:!0}}},url:{pattern:RegExp("\\burl\\((?:"+e.source+"|(?:[^\\\\\r\n()\"']|\\\\[^])*)\\)","i"),greedy:!0,inside:{function:/^url/i,punctuation:/^\(|\)$/,string:{pattern:RegExp("^"+e.source+"$"),alias:"url"}}},selector:{pattern:RegExp("(^|[{}\\s])[^{}\\s](?:[^{};\"'\\s]|\\s+(?![\\s{])|"+e.source+")*(?=\\s*\\{)"),lookbehind:!0},string:{pattern:e,greedy:!0},property:{pattern:/(^|[^-\w\xA0-\uFFFF])(?!\s)[-_a-z\xA0-\uFFFF](?:(?!\s)[-\w\xA0-\uFFFF])*(?=\s*:)/i,lookbehind:!0},important:/!important\b/i,function:{pattern:/(^|[^-a-z0-9])[-a-z0-9]+(?=\()/i,lookbehind:!0},punctuation:/[(){};:,]/},s.languages.css.atrule.inside.rest=s.languages.css;var t=s.languages.markup;t&&(t.tag.addInlined("style","css"),t.tag.addAttribute("style","css"))}(Prism);
+Prism.languages.clike={comment:[{pattern:/(^|[^\\])\/\*[\s\S]*?(?:\*\/|$)/,lookbehind:!0,greedy:!0},{pattern:/(^|[^\\:])\/\/.*/,lookbehind:!0,greedy:!0}],string:{pattern:/(["'])(?:\\(?:\r\n|[\s\S])|(?!\1)[^\\\r\n])*\1/,greedy:!0},"class-name":{pattern:/(\b(?:class|extends|implements|instanceof|interface|new|trait)\s+|\bcatch\s+\()[\w.\\]+/i,lookbehind:!0,inside:{punctuation:/[.\\]/}},keyword:/\b(?:break|catch|continue|do|else|finally|for|function|if|in|instanceof|new|null|return|throw|try|while)\b/,boolean:/\b(?:false|true)\b/,function:/\b\w+(?=\()/,number:/\b0x[\da-f]+\b|(?:\b\d+(?:\.\d*)?|\B\.\d+)(?:e[+-]?\d+)?/i,operator:/[<>]=?|[!=]=?=?|--?|\+\+?|&&?|\|\|?|[?*/~^%]/,punctuation:/[{}[\];(),.:]/};
+Prism.languages.javascript=Prism.languages.extend("clike",{"class-name":[Prism.languages.clike["class-name"],{pattern:/(^|[^$\w\xA0-\uFFFF])(?!\s)[_$A-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\.(?:constructor|prototype))/,lookbehind:!0}],keyword:[{pattern:/((?:^|\})\s*)catch\b/,lookbehind:!0},{pattern:/(^|[^.]|\.\.\.\s*)\b(?:as|assert(?=\s*\{)|async(?=\s*(?:function\b|\(|[$\w\xA0-\uFFFF]|$))|await|break|case|class|const|continue|debugger|default|delete|do|else|enum|export|extends|finally(?=\s*(?:\{|$))|for|from(?=\s*(?:['"]|$))|function|(?:get|set)(?=\s*(?:[#\[$\w\xA0-\uFFFF]|$))|if|implements|import|in|instanceof|interface|let|new|null|of|package|private|protected|public|return|static|super|switch|this|throw|try|typeof|undefined|var|void|while|with|yield)\b/,lookbehind:!0}],function:/#?(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*(?:\.\s*(?:apply|bind|call)\s*)?\()/,number:{pattern:RegExp("(^|[^\\w$])(?:NaN|Infinity|0[bB][01]+(?:_[01]+)*n?|0[oO][0-7]+(?:_[0-7]+)*n?|0[xX][\\dA-Fa-f]+(?:_[\\dA-Fa-f]+)*n?|\\d+(?:_\\d+)*n|(?:\\d+(?:_\\d+)*(?:\\.(?:\\d+(?:_\\d+)*)?)?|\\.\\d+(?:_\\d+)*)(?:[Ee][+-]?\\d+(?:_\\d+)*)?)(?![\\w$])"),lookbehind:!0},operator:/--|\+\+|\*\*=?|=>|&&=?|\|\|=?|[!=]==|<<=?|>>>?=?|[-+*/%&|^!=<>]=?|\.{3}|\?\?=?|\?\.?|[~:]/}),Prism.languages.javascript["class-name"][0].pattern=/(\b(?:class|extends|implements|instanceof|interface|new)\s+)[\w.\\]+/,Prism.languages.insertBefore("javascript","keyword",{regex:{pattern:RegExp("((?:^|[^$\\w\\xA0-\\uFFFF.\"'\\])\\s]|\\b(?:return|yield))\\s*)/(?:(?:\\[(?:[^\\]\\\\\r\n]|\\\\.)*\\]|\\\\.|[^/\\\\\\[\r\n])+/[dgimyus]{0,7}|(?:\\[(?:[^[\\]\\\\\r\n]|\\\\.|\\[(?:[^[\\]\\\\\r\n]|\\\\.|\\[(?:[^[\\]\\\\\r\n]|\\\\.)*\\])*\\])*\\]|\\\\.|[^/\\\\\\[\r\n])+/[dgimyus]{0,7}v[dgimyus]{0,7})(?=(?:\\s|/\\*(?:[^*]|\\*(?!/))*\\*/)*(?:$|[\r\n,.;:})\\]]|//))"),lookbehind:!0,greedy:!0,inside:{"regex-source":{pattern:/^(\/)[\s\S]+(?=\/[a-z]*$)/,lookbehind:!0,alias:"language-regex",inside:Prism.languages.regex},"regex-delimiter":/^\/|\/$/,"regex-flags":/^[a-z]+$/}},"function-variable":{pattern:/#?(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*[=:]\s*(?:async\s*)?(?:\bfunction\b|(?:\((?:[^()]|\([^()]*\))*\)|(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*)\s*=>))/,alias:"function"},parameter:[{pattern:/(function(?:\s+(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*)?\s*\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\))/,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/(^|[^$\w\xA0-\uFFFF])(?!\s)[_$a-z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*=>)/i,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/(\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\)\s*=>)/,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/((?:\b|\s|^)(?!(?:as|async|await|break|case|catch|class|const|continue|debugger|default|delete|do|else|enum|export|extends|finally|for|from|function|get|if|implements|import|in|instanceof|interface|let|new|null|of|package|private|protected|public|return|set|static|super|switch|this|throw|try|typeof|undefined|var|void|while|with|yield)(?![$\w\xA0-\uFFFF]))(?:(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*\s*)\(\s*|\]\s*\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\)\s*\{)/,lookbehind:!0,inside:Prism.languages.javascript}],constant:/\b[A-Z](?:[A-Z_]|\dx?)*\b/}),Prism.languages.insertBefore("javascript","string",{hashbang:{pattern:/^#!.*/,greedy:!0,alias:"comment"},"template-string":{pattern:/`(?:\\[\s\S]|\$\{(?:[^{}]|\{(?:[^{}]|\{[^}]*\})*\})+\}|(?!\$\{)[^\\`])*`/,greedy:!0,inside:{"template-punctuation":{pattern:/^`|`$/,alias:"string"},interpolation:{pattern:/((?:^|[^\\])(?:\\{2})*)\$\{(?:[^{}]|\{(?:[^{}]|\{[^}]*\})*\})+\}/,lookbehind:!0,inside:{"interpolation-punctuation":{pattern:/^\$\{|\}$/,alias:"punctuation"},rest:Prism.languages.javascript}},string:/[\s\S]+/}},"string-property":{pattern:/((?:^|[,{])[ \t]*)(["'])(?:\\(?:\r\n|[\s\S])|(?!\2)[^\\\r\n])*\2(?=\s*:)/m,lookbehind:!0,greedy:!0,alias:"property"}}),Prism.languages.insertBefore("javascript","operator",{"literal-property":{pattern:/((?:^|[,{])[ \t]*)(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*:)/m,lookbehind:!0,alias:"property"}}),Prism.languages.markup&&(Prism.languages.markup.tag.addInlined("script","javascript"),Prism.languages.markup.tag.addAttribute("on(?:abort|blur|change|click|composition(?:end|start|update)|dblclick|error|focus(?:in|out)?|key(?:down|up)|load|mouse(?:down|enter|leave|move|out|over|up)|reset|resize|scroll|select|slotchange|submit|unload|wheel)","javascript")),Prism.languages.js=Prism.languages.javascript;
+!function(e){var n=/\b(?:abstract|assert|boolean|break|byte|case|catch|char|class|const|continue|default|do|double|else|enum|exports|extends|final|finally|float|for|goto|if|implements|import|instanceof|int|interface|long|module|native|new|non-sealed|null|open|opens|package|permits|private|protected|provides|public|record(?!\s*[(){}[\]<>=%~.:,;?+\-*/&|^])|requires|return|sealed|short|static|strictfp|super|switch|synchronized|this|throw|throws|to|transient|transitive|try|uses|var|void|volatile|while|with|yield)\b/,t="(?:[a-z]\\w*\\s*\\.\\s*)*(?:[A-Z]\\w*\\s*\\.\\s*)*",s={pattern:RegExp("(^|[^\\w.])"+t+"[A-Z](?:[\\d_A-Z]*[a-z]\\w*)?\\b"),lookbehind:!0,inside:{namespace:{pattern:/^[a-z]\w*(?:\s*\.\s*[a-z]\w*)*(?:\s*\.)?/,inside:{punctuation:/\./}},punctuation:/\./}};e.languages.java=e.languages.extend("clike",{string:{pattern:/(^|[^\\])"(?:\\.|[^"\\\r\n])*"/,lookbehind:!0,greedy:!0},"class-name":[s,{pattern:RegExp("(^|[^\\w.])"+t+"[A-Z]\\w*(?=\\s+\\w+\\s*[;,=()]|\\s*(?:\\[[\\s,]*\\]\\s*)?::\\s*new\\b)"),lookbehind:!0,inside:s.inside},{pattern:RegExp("(\\b(?:class|enum|extends|implements|instanceof|interface|new|record|throws)\\s+)"+t+"[A-Z]\\w*\\b"),lookbehind:!0,inside:s.inside}],keyword:n,function:[e.languages.clike.function,{pattern:/(::\s*)[a-z_]\w*/,lookbehind:!0}],number:/\b0b[01][01_]*L?\b|\b0x(?:\.[\da-f_p+-]+|[\da-f_]+(?:\.[\da-f_p+-]+)?)\b|(?:\b\d[\d_]*(?:\.[\d_]*)?|\B\.\d[\d_]*)(?:e[+-]?\d[\d_]*)?[dfl]?/i,operator:{pattern:/(^|[^.])(?:<<=?|>>>?=?|->|--|\+\+|&&|\|\||::|[?:~]|[-+*/%&|^!=<>]=?)/m,lookbehind:!0},constant:/\b[A-Z][A-Z_\d]+\b/}),e.languages.insertBefore("java","string",{"triple-quoted-string":{pattern:/"""[ \t]*[\r\n](?:(?:"|"")?(?:\\.|[^"\\]))*"""/,greedy:!0,alias:"string"},char:{pattern:/'(?:\\.|[^'\\\r\n]){1,6}'/,greedy:!0}}),e.languages.insertBefore("java","class-name",{annotation:{pattern:/(^|[^.])@\w+(?:\s*\.\s*\w+)*/,lookbehind:!0,alias:"punctuation"},generics:{pattern:/<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&))*>)*>)*>)*>/,inside:{"class-name":s,keyword:n,punctuation:/[<>(),.:]/,operator:/[?&|]/}},import:[{pattern:RegExp("(\\bimport\\s+)"+t+"(?:[A-Z]\\w*|\\*)(?=\\s*;)"),lookbehind:!0,inside:{namespace:s.inside.namespace,punctuation:/\./,operator:/\*/,"class-name":/\w+/}},{pattern:RegExp("(\\bimport\\s+static\\s+)"+t+"(?:\\w+|\\*)(?=\\s*;)"),lookbehind:!0,alias:"static",inside:{namespace:s.inside.namespace,static:/\b\w+$/,punctuation:/\./,operator:/\*/,"class-name":/\w+/}}],namespace:{pattern:RegExp("(\\b(?:exports|import(?:\\s+static)?|module|open|opens|package|provides|requires|to|transitive|uses|with)\\s+)(?!<keyword>)[a-z]\\w*(?:\\.[a-z]\\w*)*\\.?".replace(/<keyword>/g,(function(){return n.source}))),lookbehind:!0,inside:{punctuation:/\./}}})}(Prism);
+!function(a){var e=a.languages.javadoclike={parameter:{pattern:/(^[\t ]*(?:\/{3}|\*|\/\*\*)\s*@(?:arg|arguments|param)\s+)\w+/m,lookbehind:!0},keyword:{pattern:/(^[\t ]*(?:\/{3}|\*|\/\*\*)\s*|\{)@[a-z][a-zA-Z-]+\b/m,lookbehind:!0},punctuation:/[{}]/};Object.defineProperty(e,"addSupport",{value:function(e,n){"string"==typeof e&&(e=[e]),e.forEach((function(e){!function(e,n){var t="doc-comment",r=a.languages[e];if(r){var o=r[t];if(o||(o=(r=a.languages.insertBefore(e,"comment",{"doc-comment":{pattern:/(^|[^\\])\/\*\*[^/][\s\S]*?(?:\*\/|$)/,lookbehind:!0,alias:"comment"}}))[t]),o instanceof RegExp&&(o=r[t]={pattern:o}),Array.isArray(o))for(var i=0,s=o.length;i<s;i++)o[i]instanceof RegExp&&(o[i]={pattern:o[i]}),n(o[i]);else n(o)}}(e,(function(a){a.inside||(a.inside={}),a.inside.rest=n}))}))}}),e.addSupport(["java","javascript","php"],e)}(Prism);
+!function(a){var e=/(^(?:[\t ]*(?:\*\s*)*))[^*\s].*$/m,n="(?:\\b[a-zA-Z]\\w+\\s*\\.\\s*)*\\b[A-Z]\\w*(?:\\s*<mem>)?|<mem>".replace(/<mem>/g,(function(){return"#\\s*\\w+(?:\\s*\\([^()]*\\))?"}));a.languages.javadoc=a.languages.extend("javadoclike",{}),a.languages.insertBefore("javadoc","keyword",{reference:{pattern:RegExp("(@(?:exception|link|linkplain|see|throws|value)\\s+(?:\\*\\s*)?)(?:"+n+")"),lookbehind:!0,inside:{function:{pattern:/(#\s*)\w+(?=\s*\()/,lookbehind:!0},field:{pattern:/(#\s*)\w+/,lookbehind:!0},namespace:{pattern:/\b(?:[a-z]\w*\s*\.\s*)+/,inside:{punctuation:/\./}},"class-name":/\b[A-Z]\w*/,keyword:a.languages.java.keyword,punctuation:/[#()[\],.]/}},"class-name":{pattern:/(@param\s+)<[A-Z]\w*>/,lookbehind:!0,inside:{punctuation:/[.<>]/}},"code-section":[{pattern:/(\{@code\s+(?!\s))(?:[^\s{}]|\s+(?![\s}])|\{(?:[^{}]|\{(?:[^{}]|\{(?:[^{}]|\{[^{}]*\})*\})*\})*\})+(?=\s*\})/,lookbehind:!0,inside:{code:{pattern:e,lookbehind:!0,inside:a.languages.java,alias:"language-java"}}},{pattern:/(<(code|pre|tt)>(?!<code>)\s*)\S(?:\S|\s+\S)*?(?=\s*<\/\2>)/,lookbehind:!0,inside:{line:{pattern:e,lookbehind:!0,inside:{tag:a.languages.markup.tag,entity:a.languages.markup.entity,code:{pattern:/.+/,inside:a.languages.java,alias:"language-java"}}}}}],tag:a.languages.markup.tag,entity:a.languages.markup.entity}),a.languages.javadoclike.addSupport("java",a.languages.javadoc)}(Prism);
+!function(n){n.languages.kotlin=n.languages.extend("clike",{keyword:{pattern:/(^|[^.])\b(?:abstract|actual|annotation|as|break|by|catch|class|companion|const|constructor|continue|crossinline|data|do|dynamic|else|enum|expect|external|final|finally|for|fun|get|if|import|in|infix|init|inline|inner|interface|internal|is|lateinit|noinline|null|object|open|operator|out|override|package|private|protected|public|reified|return|sealed|set|super|suspend|tailrec|this|throw|to|try|typealias|val|var|vararg|when|where|while)\b/,lookbehind:!0},function:[{pattern:/(?:`[^\r\n`]+`|\b\w+)(?=\s*\()/,greedy:!0},{pattern:/(\.)(?:`[^\r\n`]+`|\w+)(?=\s*\{)/,lookbehind:!0,greedy:!0}],number:/\b(?:0[xX][\da-fA-F]+(?:_[\da-fA-F]+)*|0[bB][01]+(?:_[01]+)*|\d+(?:_\d+)*(?:\.\d+(?:_\d+)*)?(?:[eE][+-]?\d+(?:_\d+)*)?[fFL]?)\b/,operator:/\+[+=]?|-[-=>]?|==?=?|!(?:!|==?)?|[\/*%<>]=?|[?:]:?|\.\.|&&|\|\||\b(?:and|inv|or|shl|shr|ushr|xor)\b/}),delete n.languages.kotlin["class-name"];var e={"interpolation-punctuation":{pattern:/^\$\{?|\}$/,alias:"punctuation"},expression:{pattern:/[\s\S]+/,inside:n.languages.kotlin}};n.languages.insertBefore("kotlin","string",{"string-literal":[{pattern:/"""(?:[^$]|\$(?:(?!\{)|\{[^{}]*\}))*?"""/,alias:"multiline",inside:{interpolation:{pattern:/\$(?:[a-z_]\w*|\{[^{}]*\})/i,inside:e},string:/[\s\S]+/}},{pattern:/"(?:[^"\\\r\n$]|\\.|\$(?:(?!\{)|\{[^{}]*\}))*"/,alias:"singleline",inside:{interpolation:{pattern:/((?:^|[^\\])(?:\\{2})*)\$(?:[a-z_]\w*|\{[^{}]*\})/i,lookbehind:!0,inside:e},string:/[\s\S]+/}}],char:{pattern:/'(?:[^'\\\r\n]|\\(?:.|u[a-fA-F0-9]{0,4}))'/,greedy:!0}}),delete n.languages.kotlin.string,n.languages.insertBefore("kotlin","keyword",{annotation:{pattern:/\B@(?:\w+:)?(?:[A-Z]\w*|\[[^\]]+\])/,alias:"builtin"}}),n.languages.insertBefore("kotlin","function",{label:{pattern:/\b\w+@|@\w+\b/,alias:"symbol"}}),n.languages.kt=n.languages.kotlin,n.languages.kts=n.languages.kotlin}(Prism);
+"undefined"!=typeof Prism&&"undefined"!=typeof document&&document.createRange&&(Prism.plugins.KeepMarkup=!0,Prism.hooks.add("before-highlight",(function(e){if(e.element.children.length&&Prism.util.isActive(e.element,"keep-markup",!0)){var n=Prism.util.isActive(e.element,"drop-tokens",!1),t=0,o=[];r(e.element),o.length&&(e.keepMarkup=o)}function d(e){if(function(e){return!n||"span"!==e.nodeName.toLowerCase()||!e.classList.contains("token")}(e)){var d={element:e,posOpen:t};o.push(d),r(e),d.posClose=t}else r(e)}function r(e){for(var n=0,o=e.childNodes.length;n<o;n++){var r=e.childNodes[n];1===r.nodeType?d(r):3===r.nodeType&&(t+=r.data.length)}}})),Prism.hooks.add("after-highlight",(function(e){if(e.keepMarkup&&e.keepMarkup.length){var n=function(e,t){for(var o=0,d=e.childNodes.length;o<d;o++){var r=e.childNodes[o];if(1===r.nodeType){if(!n(r,t))return!1}else 3===r.nodeType&&(!t.nodeStart&&t.pos+r.data.length>t.node.posOpen&&(t.nodeStart=r,t.nodeStartPos=t.node.posOpen-t.pos),t.nodeStart&&t.pos+r.data.length>=t.node.posClose&&(t.nodeEnd=r,t.nodeEndPos=t.node.posClose-t.pos),t.pos+=r.data.length);if(t.nodeStart&&t.nodeEnd){var s=document.createRange();return s.setStart(t.nodeStart,t.nodeStartPos),s.setEnd(t.nodeEnd,t.nodeEndPos),t.node.element.innerHTML="",t.node.element.appendChild(s.extractContents()),s.insertNode(t.node.element),s.detach(),!1}}return!0};e.keepMarkup.forEach((function(t){n(e.element,{node:t,pos:0})})),e.highlightedCode=e.element.innerHTML}})));
+
+/*
+ * This is NOT part of the prism.js main script, it's specific to Dokka.
+ * Dokka generates <br> tags for new lines inside <pre> blocks and it works visually,
+ * but it causes prism.js to incorrectly parse some tags (such as inline comments)
+ *
+ * This can be removed if there are no `<br>` tags inside `<pre>` anymore, but
+ * if there still are - DO NOT remove this hook when upading prism.js to a newer version
+ */
+Prism.hooks.add('before-sanity-check', function (env){env.element.innerHTML = env.element.innerHTML.replace(/<br>/g, '\n');env.code = env.element.textContent;});
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/sourceset_dependencies.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/sourceset_dependencies.js
new file mode 100644
index 00000000..b3aa7385
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/sourceset_dependencies.js
@@ -0,0 +1 @@
+sourceset_dependencies='{":dokkaHtml/main":[]}'
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/scripts/symbol-parameters-wrapper_deferred.js b/docs/dokka/v0.2.0/older/v0.1.0/scripts/symbol-parameters-wrapper_deferred.js
new file mode 100644
index 00000000..7ecae7a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/scripts/symbol-parameters-wrapper_deferred.js
@@ -0,0 +1,64 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+// helps with some corner cases where <wbr> starts working already,
+// but the signature is not yet long enough to be wrapped
+(function() {
+    const leftPaddingPx = 60;
+
+    function createNbspIndent() {
+        let indent = document.createElement("span");
+        indent.append(document.createTextNode("\u00A0\u00A0\u00A0\u00A0"));
+        indent.classList.add("nbsp-indent");
+        return indent;
+    }
+
+    function wrapSymbolParameters(entry) {
+        const symbol = entry.target;
+        const symbolBlockWidth = entry.borderBoxSize && entry.borderBoxSize[0] && entry.borderBoxSize[0].inlineSize;
+
+        // Even though the script is marked as `defer` and we wait for `DOMContentLoaded` event,
+        // or if this block is a part of hidden tab, it can happen that `symbolBlockWidth` is 0,
+        // indicating that something hasn't been loaded.
+        // In this case, observer will be triggered onсe again when it will be ready.
+        if (symbolBlockWidth > 0) {
+            const node = symbol.querySelector(".parameters");
+
+            if (node) {
+                // if window resize happened and observer was triggered, reset previously wrapped
+                // parameters as they might not need wrapping anymore, and check again
+                node.classList.remove("wrapped");
+                node.querySelectorAll(".parameter .nbsp-indent")
+                    .forEach(indent => indent.remove());
+
+                const innerTextWidth = Array.from(symbol.children)
+                    .filter(it => !it.classList.contains("block")) // blocks are usually on their own (like annotations), so ignore it
+                    .map(it => it.getBoundingClientRect().width)
+                    .reduce((a, b) => a + b, 0);
+
+                // if signature text takes up more than a single line, wrap params for readability
+                if (innerTextWidth > (symbolBlockWidth - leftPaddingPx)) {
+                    node.classList.add("wrapped");
+                    node.querySelectorAll(".parameter").forEach(param => {
+                        // has to be a physical indent so that it can be copied. styles like
+                        // paddings and `::before { content: "    " }` do not work for that
+                        param.prepend(createNbspIndent());
+                    });
+                }
+            }
+        }
+    }
+
+    const symbolsObserver = new ResizeObserver(entries => entries.forEach(wrapSymbolParameters));
+
+    function initHandlers() {
+        document.querySelectorAll("div.symbol").forEach(symbol => symbolsObserver.observe(symbol));
+    }
+
+    if (document.readyState === 'loading') window.addEventListener('DOMContentLoaded', initHandlers);
+    else initHandlers();
+
+    // ToDo: Add `unobserve` if dokka will be SPA-like:
+    //       https://github.com/w3c/csswg-drafts/issues/5155
+})();
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/font-jb-sans-auto.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/font-jb-sans-auto.css
new file mode 100644
index 00000000..bdc68723
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/font-jb-sans-auto.css
@@ -0,0 +1,36 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+/* Light weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Light.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Light.woff') format('woff');
+    font-weight: 300;
+    font-style: normal;
+}
+/* Regular weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Regular.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Regular.woff') format('woff');
+    font-weight: 400;
+    font-style: normal;
+}
+/* SemiBold weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-SemiBold.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-SemiBold.woff') format('woff');
+    font-weight: 600;
+    font-style: normal;
+}
+
+@supports (font-variation-settings: normal) {
+    @font-face {
+        font-family: 'JetBrains Sans';
+        src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff2') format('woff2 supports variations'),
+        url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff2') format('woff2-variations'),
+        url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff') format('woff-variations');
+        font-weight: 100 900;
+        font-style: normal;
+    }
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/logo-styles.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/logo-styles.css
new file mode 100644
index 00000000..69804e46
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/logo-styles.css
@@ -0,0 +1,9 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+:root {
+    --dokka-logo-image-url: url('../images/logo-icon.svg');
+    --dokka-logo-height: 50px;
+    --dokka-logo-width: 50px;
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/main.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/main.css
new file mode 100644
index 00000000..5f7781ec
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/main.css
@@ -0,0 +1,124 @@
+/*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */#pages-search{cursor:pointer;border:none;border-radius:50%;background:transparent;fill:#fff;fill:var(--dark-mode-and-search-icon-color)}#pages-search:hover{background:var(--white-10)}.search,.search [data-test=ring-select],.search [data-test=ring-tooltip],.search [data-test=ring-select_focus],.search #pages-search{display:inline-block;padding:0;margin:0;font-size:0;line-height:0}.search-hotkey-popup{background-color:var(--background-color) !important;padding:4px}.popup-wrapper{min-width:calc(100% - 322px) !important;border:1px solid rgba(255,255,255,.2) !important;background-color:#27282c !important;color:rgba(255,255,255,.8)}.popup-wrapper [class^=filterWrapper]{border-bottom:1px solid rgba(255,255,255,.2)}.popup-wrapper input{color:rgba(255,255,255,.8) !important;font-weight:normal !important}.popup-wrapper span[data-test-custom=ring-select-popup-filter-icon]{color:#fff}.popup-wrapper button[data-test=ring-input-clear]{color:#fff !important}@media screen and (max-width: 759px){.popup-wrapper{min-width:100% !important}}.template-wrapper{display:grid;height:32px;grid-template-columns:auto auto}.template-wrapper strong{color:rgba(255,255,255,.8)}.template-wrapper span{color:rgba(255,255,255,.8);line-height:32px}.template-wrapper span.template-description{color:rgba(255,255,255,.6);justify-self:end}@media screen and (max-width: 759px){.template-wrapper{display:flex;flex-direction:column;height:auto}.template-wrapper span{line-height:unset}}.template-name{justify-self:start}[class^=fade]{display:none}[class*=hover]{background-color:rgba(255,255,255,.1) !important}
+/* stylelint-disable color-no-hex */
+
+:root {
+  --ring-unit: 8px;
+
+  /* Element */
+  --ring-line-color: #dfe5eb;
+  --ring-dark-line-color: #475159;
+  --ring-borders-color: #b8d1e5;
+  --ring-dark-borders-color: #406380;
+  --ring-icon-color: var(--ring-borders-color);
+  --ring-icon-secondary-color: #999;
+  --ring-border-disabled-color: #dbdbdb;
+  --ring-icon-disabled-color: #bbb;
+  --ring-border-hover-color: #80c6ff;
+  --ring-dark-border-hover-color: #70b1e6;
+  --ring-icon-hover-color: var(--ring-link-hover-color);
+  --ring-main-color: #008eff;
+  --ring-main-hover-color: #007ee5;
+  --ring-icon-error-color: #db5860;
+  --ring-icon-warning-color: #eda200;
+  --ring-icon-success-color: #59a869;
+  --ring-pale-control-color: #cfdbe5;
+  --ring-popup-border-components: 0, 42, 76;
+  --ring-popup-border-color: rgba(var(--ring-popup-border-components), 0.1);
+  --ring-popup-shadow-color: rgba(var(--ring-popup-border-components), 0.15);
+  --ring-message-shadow-color: rgba(var(--ring-popup-border-components), 0.3);
+  --ring-pinned-shadow-color: #737577;
+
+  /* Text */
+  --ring-search-color: #669ecc;
+  --ring-hint-color: #406380;
+  --ring-link-color: #0f5b99;
+  --ring-link-hover-color: #ff008c;
+  --ring-error-color: #c22731;
+  --ring-warning-color: #cc8b00;
+  --ring-success-color: #1b8833;
+  --ring-text-color: #1f2326;
+  --ring-dark-text-color: #fff;
+  --ring-heading-color: var(--ring-text-color);
+  --ring-secondary-color: #737577;
+  --ring-dark-secondary-color: #888;
+  --ring-disabled-color: #999;
+  --ring-dark-disabled-color: #444;
+  --ring-dark-active-color: #ccc;
+
+  /* Background */
+  --ring-content-background-color: #fff;
+  --ring-popup-background-color: #fff;
+  --ring-sidebar-background-color: #f7f9fa;
+  --ring-selected-background-color: #d4edff;
+  --ring-hover-background-color: #ebf6ff;
+  --ring-dark-selected-background-color: #002a4d;
+  --ring-message-background-color: #111314;
+  --ring-navigation-background-color: #000;
+  --ring-tag-background-color: #e6ecf2;
+  --ring-removed-background-color: #ffd5cb;
+  --ring-warning-background-color: #faeccd;
+  --ring-added-background-color: #bce8bb;
+
+  /* Code */
+  --ring-code-background-color: var(--ring-content-background-color);
+  --ring-code-color: #000;
+  --ring-code-comment-color: #707070;
+  --ring-code-meta-color: #707070;
+  --ring-code-keyword-color: #000080;
+  --ring-code-tag-background-color: #efefef;
+  --ring-code-tag-color: var(--ring-code-keyword-color);
+  --ring-code-tag-font-weight: bold;
+  --ring-code-field-color: #660e7a;
+  --ring-code-attribute-color: #00f;
+  --ring-code-number-color: var(--ring-code-attribute-color);
+  --ring-code-string-color: #007a00;
+  --ring-code-addition-color: #aadeaa;
+  --ring-code-deletion-color: #c8c8c8;
+
+  /* Metrics */
+  --ring-border-radius: 3px;
+  --ring-border-radius-small: 2px;
+  --ring-font-size-larger: 14px;
+  --ring-font-size: 13px;
+  --ring-font-size-smaller: 12px;
+  --ring-line-height-taller: 21px;
+  --ring-line-height: 20px;
+  --ring-line-height-lower: 18px;
+  --ring-line-height-lowest: 16px;
+  --ring-ease: 0.3s ease-out;
+  --ring-fast-ease: 0.15s ease-out;
+  --ring-font-family: system-ui, Arial, sans-serif;
+  --ring-font-family-monospace:
+    Menlo,
+    "Bitstream Vera Sans Mono",
+    "Ubuntu Mono",
+    Consolas,
+    "Courier New",
+    Courier,
+    monospace;
+
+  /* Common z-index-values */
+
+  /* Invisible element is an absolutely positioned element which should be below */
+  /* all other elements on the page */
+  --ring-invisible-element-z-index: -1;
+
+  /* z-index for position: fixed elements */
+  --ring-fixed-z-index: 1;
+
+  /* Elements that should overlay all other elements on the page */
+  --ring-overlay-z-index: 5;
+
+  /* Alerts should de displayed above overlays */
+  --ring-alert-z-index: 6;
+}
+
+/*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ *//*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */html,.app-root{height:100%}.search-root{margin:0;padding:0;background:var(--ring-content-background-color);font-family:var(--ring-font-family);font-size:var(--ring-font-size);line-height:var(--ring-line-height)}.search-content{z-index:8}
+
+/*# sourceMappingURL=main.css.map*/
\ No newline at end of file
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/multimodule.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/multimodule.css
new file mode 100644
index 00000000..91798c1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/multimodule.css
@@ -0,0 +1,55 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+.versions-dropdown {
+  position: relative;
+}
+
+.versions-dropdown-button {
+  display: flex;
+  border: none;
+  cursor: pointer;
+  padding: 5px;
+}
+
+.versions-dropdown-button::after {
+    content: '';
+    -webkit-mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask-size: auto;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: #fff;
+    display: inline-block;
+    transform: rotate(90deg);
+    width: 24px;
+    height: 16px;
+}
+
+.versions-dropdown-data {
+  display: none;
+  position: absolute;
+  background-color: #27282c;
+  border: 1px solid hsla(0, 0%, 100%, .6);
+  box-shadow: 0 8px 16px 0 rgba(0,0,0,0.2);
+  z-index: 1;
+  overflow-y: auto;
+  max-height: 200px;
+  min-width: 50px;
+}
+
+.versions-dropdown-data > a {
+  display: block;
+  padding: 5px;
+  color: #fff;
+  text-decoration: none;
+}
+
+.versions-dropdown-data > a:hover {
+  background-color: hsla(0,0%,100%,.1)
+}
+
+.versions-dropdown:hover .versions-dropdown-data {
+  display: block;
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/prism.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/prism.css
new file mode 100644
index 00000000..2d3a091e
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/prism.css
@@ -0,0 +1,217 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+/*
+ * Custom Dokka styles
+ */
+code .token {
+    white-space: pre;
+}
+
+/**
+ * Styles based on webhelp's prism.js styles
+ * Changes:
+ * - Since webhelp's styles are in .pcss, they use nesting which is not achievable in native CSS
+ *   so nested css blocks have been unrolled (like dark theme).
+ * - Webhelp uses "Custom Class" prism.js plugin, so all of their prism classes are prefixed with "--prism".
+ *   Dokka doesn't seem to need this plugin at the moment, so all "--prism" prefixes have been removed.
+ * - Removed all styles related to `pre` and `code` tags. Kotlinlang's resulting styles are so spread out and complicated
+ *   that it's difficult to gather in one place. Instead use code styles defined in the main Dokka styles,
+ *   which at the moment looks fairly similar.
+ *
+ * Based on prism.js default theme
+ * Based on dabblet (http://dabblet.com)
+ * @author Lea Verou
+ */
+
+.token.comment,
+.token.prolog,
+.token.doctype,
+.token.cdata {
+	color: #8c8c8c;
+}
+
+.token.punctuation {
+	color: #999;
+}
+
+.token.namespace {
+	opacity: 0.7;
+}
+
+.token.property,
+.token.tag,
+.token.boolean,
+.token.number,
+.token.constant,
+.token.symbol,
+.token.deleted {
+	color: #871094;
+}
+
+.token.selector,
+.token.attr-name,
+.token.string,
+.token.char,
+.token.builtin,
+.token.inserted {
+	color: #067d17;
+}
+
+.token.operator,
+.token.entity,
+.token.url,
+.language-css .token.string,
+.style .token.string {
+	color: #9a6e3a;
+	/* This background color was intended by the author of this theme. */
+	background: hsla(0, 0%, 100%, 0.5);
+}
+
+.token.atrule,
+.token.attr-value,
+.token.keyword {
+	font-size: inherit; /* to override .keyword */
+	color: #0033b3;
+}
+
+.token.function {
+	color: #00627a;
+}
+
+.token.class-name {
+	color: #000000;
+}
+
+.token.regex,
+.token.important,
+.token.variable {
+	color: #871094;
+}
+
+.token.important,
+.token.bold {
+	font-weight: bold;
+}
+.token.italic {
+	font-style: italic;
+}
+
+.token.entity {
+	cursor: help;
+}
+
+.token.operator {
+	background: none;
+}
+
+/*
+ * DARK THEME
+ */
+:root.theme-dark .token.comment,
+:root.theme-dark .token.prolog,
+:root.theme-dark .token.cdata {
+	color: #808080;
+}
+
+:root.theme-dark .token.delimiter,
+:root.theme-dark .token.boolean,
+:root.theme-dark .token.keyword,
+:root.theme-dark .token.selector,
+:root.theme-dark .token.important,
+:root.theme-dark .token.atrule {
+	color: #cc7832;
+}
+
+:root.theme-dark .token.operator,
+:root.theme-dark .token.punctuation,
+:root.theme-dark .token.attr-name {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.tag,
+:root.theme-dark .token.tag .punctuation,
+:root.theme-dark .token.doctype,
+:root.theme-dark .token.builtin {
+	color: #e8bf6a;
+}
+
+:root.theme-dark .token.entity,
+:root.theme-dark .token.number,
+:root.theme-dark .token.symbol {
+	color: #6897bb;
+}
+
+:root.theme-dark .token.property,
+:root.theme-dark .token.constant,
+:root.theme-dark .token.variable {
+	color: #9876aa;
+}
+
+:root.theme-dark .token.string,
+:root.theme-dark .token.char {
+	color: #6a8759;
+}
+
+:root.theme-dark .token.attr-value,
+:root.theme-dark .token.attr-value .punctuation {
+	color: #a5c261;
+}
+
+:root.theme-dark .token.attr-value .punctuation:first-child {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.url {
+	text-decoration: underline;
+
+	color: #287bde;
+	background: transparent;
+}
+
+:root.theme-dark .token.function {
+	color: #ffc66d;
+}
+
+:root.theme-dark .token.regex {
+	background: #364135;
+}
+
+:root.theme-dark .token.deleted {
+	background: #484a4a;
+}
+
+:root.theme-dark .token.inserted {
+	background: #294436;
+}
+
+:root.theme-dark .token.class-name {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.function {
+	color: #ffc66d;
+}
+
+:root.theme-darkcode .language-css .token.property,
+:root.theme-darkcode .language-css,
+:root.theme-dark .token.property + .token.punctuation {
+	color: #a9b7c6;
+}
+
+code.language-css .token.id {
+	color: #ffc66d;
+}
+
+:root.theme-dark code.language-css .token.selector > .token.class,
+:root.theme-dark code.language-css .token.selector > .token.attribute,
+:root.theme-dark code.language-css .token.selector > .token.pseudo-class,
+:root.theme-dark code.language-css .token.selector > .token.pseudo-element {
+	color: #ffc66d;
+}
+
+:root.theme-dark .language-plaintext .token {
+	/* plaintext code should be colored as article text */
+	color: inherit !important;
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/styles/style.css b/docs/dokka/v0.2.0/older/v0.1.0/styles/style.css
new file mode 100644
index 00000000..fc2b84d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/styles/style.css
@@ -0,0 +1,1509 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+@import url('./font-jb-sans-auto.css');
+@import url('https://fonts.googleapis.com/css?family=JetBrains+Mono');
+
+/* --- root styles --- */
+:root {
+    --default-gray: #f4f4f4;
+    --default-font-color: black;
+    --header-font-color: var(--default-font-color);
+
+    --breadcrumb-font-color: #637282;
+    --breadcrumb-margin: 24px;
+    --hover-link-color: #5B5DEF;
+
+    --footer-height: 64px;
+    --footer-padding-top: 48px;
+    --footer-background: var(--default-gray);
+    --footer-font-color: var(--average-color);
+    --footer-go-to-top-color: white;
+
+    --horizontal-spacing-for-content: 16px;
+    --bottom-spacing: 16px;
+    --color-scrollbar: rgba(39, 40, 44, 0.40);
+    --color-scrollbar-track: var(--default-gray);
+    --default-white: #fff;
+    --background-color: var(--default-white);
+    --dark-mode-and-search-icon-color: var(--default-white);
+    --color-dark: #27282c;
+    --default-font-family: JetBrains Sans, Inter, system-ui, -apple-system, BlinkMacSystemFont, Segoe UI,Roboto, Oxygen, Ubuntu,Cantarell, Droid Sans, Helvetica Neue, Arial, sans-serif;
+    --default-monospace-font-family: JetBrains Mono, SFMono-Regular, Consolas, Liberation Mono, Menlo, Courier, monospace;
+    --default-font-size: 15px;
+    --average-color: var(--color-dark);
+    --brief-color: var(--average-color);
+    --copy-icon-color: rgba(39, 40, 44, .7);
+    --copy-icon-hover-color: var(--color-dark);
+    --code-background: rgba(39, 40, 44, .05);
+    --border-color: rgba(39, 40, 44, .2);
+    --navigation-highlight-color: rgba(39, 40, 44, 0.05);
+    --top-navigation-height: 73px;
+    --max-width: 1160px;
+    --white-10: hsla(0, 0%, 100%, .1);
+
+    --active-tab-border-color: #7F52FF;
+    --inactive-tab-border-color: rgba(164, 164, 170, 0.7);
+
+    --active-section-color: #7F52FF;
+    --inactive-section-color: rgba(25, 25, 28, .7);
+
+    --sidebar-width: 280px;
+    --sidemenu-section-active-color: #7F52FF;
+}
+
+html {
+    height: 100%;
+    -webkit-tap-highlight-color: rgba(0, 0, 0, 0);
+    scrollbar-color: rgba(39, 40, 44, 0.40) #F4F4F4;
+    scrollbar-color: var(--color-scrollbar) var(--color-scrollbar-track);
+    text-rendering: optimizeLegibility;
+    -webkit-font-smoothing: antialiased;
+    color: var(--default-font-color);
+}
+
+html ::-webkit-scrollbar {
+    width: 8px;
+    height: 8px;
+}
+
+html ::-webkit-scrollbar-track {
+    background-color: var(--color-scrollbar-track);
+}
+
+html ::-webkit-scrollbar-thumb {
+    width: 8px;
+    border-radius: 6px;
+    background: rgba(39, 40, 44, 0.40);
+    background: var(--color-scrollbar);
+}
+
+html, body {
+    margin: 0;
+    padding: 0;
+    height: 100%;
+    width: 100%;
+}
+/* /--- root styles --- */
+
+/* --- global tags styles --- */
+body, table {
+    background: var(--background-color);
+    font-family: var(--default-font-family);
+    font-style: normal;
+    font-weight: normal;
+    font-size: var(--default-font-size);
+    line-height: 1.6;
+    margin: 0;
+}
+
+h1 {
+    font-size: 40px;
+    line-height: 48px;
+    letter-spacing: -1px;
+}
+
+h2 {
+    font-size: 31px;
+    line-height: 40px;
+    letter-spacing: -0.5px;
+}
+
+h3 {
+    font-size: 20px;
+    line-height: 28px;
+    letter-spacing: -0.2px;
+}
+
+p, ul, ol, table, pre, dl {
+    margin: 0;
+}
+
+a {
+    text-decoration: none;
+}
+
+u {
+    text-decoration: none;
+    padding-bottom: 2px;
+    border-bottom: 1px solid var(--border-color);
+}
+
+blockquote {
+    border-left: 1ch solid var(--default-gray);
+    margin: 0;
+    padding-left: 1ch;
+    font-style: italic;
+    color: var(--average-color);
+}
+
+.theme-dark blockquote {
+    color: var(--default-font-color);
+    border-left-color: var(--code-background);
+}
+
+pre {
+    display: block;
+}
+
+dt {
+    color: #444;
+    font-weight: 530;
+}
+
+img {
+    max-width: 100%;
+}
+
+small {
+    font-size: 11px;
+}
+
+table {
+    width: 100%;
+    border-collapse: collapse;
+    padding: 5px;
+}
+
+th, td {
+    padding: 12px 10px 11px;
+    text-align: left;
+    vertical-align: top;
+}
+
+tbody > tr {
+    min-height: 56px;
+}
+
+td:first-child {
+    width: 20vw;
+}
+/* /---  global tags styles --- */
+
+/* ---  utils classes --- */
+.w-100 {
+    width: 100%;
+}
+
+.no-gutters {
+    margin: 0;
+    padding: 0;
+}
+
+.d-flex {
+    display: flex;
+}
+
+.floating-right {
+    float: right;
+}
+
+.pull-right {
+    float: right;
+    margin-left: auto
+}
+
+.clearfix::after {
+    display: block;
+    content: '';
+    clear: both;
+    height: 0;
+}
+/* /---  utils classes --- */
+
+/* ---dark theme --- */
+.theme-dark {
+    --background-color: #27282c;
+    --color-dark: #3d3d41;
+    --default-font-color: hsla(0, 0%, 100%, 0.8);
+    --border-color: hsla(0, 0%, 100%, 0.2);
+    --code-background: hsla(0, 0%, 100%, 0.05);
+    --breadcrumb-font-color: #8c8c8e;
+    --brief-color: hsla(0, 0%, 100%, 0.4);
+    --copy-icon-color: hsla(0, 0%, 100%, 0.6);
+    --copy-icon-hover-color: #fff;
+
+    --active-tab-border-color: var(--default-font-color);
+    --inactive-tab-border-color: hsla(0, 0%, 100%, 0.4);
+
+    --active-section-color: var(--default-font-color);
+    --inactive-section-color: hsla(0, 0%, 100%, 0.4);
+
+    --navigation-highlight-color: rgba(255, 255, 255, 0.05);
+    --footer-background: hsla(0, 0%, 100%, 0.05);
+    --footer-font-color: hsla(0, 0%, 100%, 0.6);
+    --footer-go-to-top-color: var(--footer-font-color);
+
+    --sidemenu-section-active-color: var(--color-dark);
+}
+/* /---dark theme --- */
+
+.root {
+    display: flex;
+    flex-direction: column;
+    height: 100%;
+}
+
+/* --- Navigation styles --- */
+.navigation {
+    display: flex;
+    justify-content: space-between;
+
+    color: #fff;
+    background-color: var(--color-dark);
+    font-family: var(--default-font-family);
+    letter-spacing: -0.1px;
+
+    /* Reset margin and use padding for border */
+    margin-left: 0;
+    margin-right: 0;
+    padding: 10px var(--horizontal-spacing-for-content);
+
+    z-index: 4;
+}
+
+.navigation--inner {
+    display: flex;
+    flex-wrap: wrap;
+    justify-content: space-between;
+    flex: 1 1 auto;
+}
+
+.navigation--inner, .navigation-title {
+    min-height: 40px;
+}
+
+.navigation-title, .filter-section {
+    align-items: center;
+}
+
+.navigation-title {
+    display: flex;
+    align-items: center;
+}
+
+/* --- Navigation MENU --- */
+.menu-toggle {
+    color: var(--background-color);
+    line-height: 0;
+    font-size: 0;
+    text-indent: -9999px;
+
+    background: transparent;
+    border: none;
+    padding: 0;
+    margin-right: 16px;
+    outline: none;
+
+    transition: margin .2s ease-out;
+    z-index: 5;
+}
+
+@media (min-width: 760px) {
+    .menu-toggle {
+        display: none;
+    }
+}
+
+.menu-toggle::before {
+    display: block;
+    content: '';
+    background: url('../images/burger.svg') no-repeat center;
+    height: 28px;
+    width: 28px;
+}
+/* /--- Navigation MENU --- */
+
+.library-version {
+    position: relative;
+    top: -4px;
+    margin-left: 3px;
+
+    color: rgba(255,255,255,.7);
+    font-size: 13px;
+    font-weight: normal;
+    line-height: 16px;
+}
+
+.filter-section {
+    z-index: 0;
+}
+
+.no-js .filter-section {
+    display: none;
+}
+
+@media (min-width: 760px) {
+    .filter-section {
+        padding: 5px 0 5px;
+    }
+}
+/* --- Navigation controls --- */
+.navigation-controls {
+    display: flex;
+    margin-left: 4px;
+}
+
+@media (min-width: 760px) {
+    .navigation-controls {
+        align-items: center;
+    }
+}
+
+.no-js .navigation-controls {
+    display: none;
+}
+
+.navigation-controls--btn {
+    display: inline-flex;
+    align-items: center;
+    justify-content: center;
+    width: 40px;
+    height: 40px;
+    border-radius: 50%;
+    background-color: inherit;
+    background-position: 50% 50%;
+    padding: 0;
+    border: none;
+    cursor: pointer;
+    font-size: 0;
+    line-height: 0;
+    transition: background-color 200ms ease-in-out;
+    will-change: background-color;
+}
+
+.navigation-controls--btn:hover {
+    background-color: var(--white-10);
+}
+
+.navigation-controls--theme {
+    background-image: url("../images/theme-toggle.svg");
+    background-repeat: no-repeat;
+}
+
+@media (max-width: 759px) {
+    .navigation-controls--theme {
+        display: none;
+    }
+}
+
+.navigation-controls--homepage {
+    background-image: url("../images/homepage.svg");
+    background-repeat: no-repeat;
+    background-size:  24px 24px;
+}
+
+@media (max-width: 759px) {
+    .navigation-controls--homepage {
+        display: none;
+    }
+}
+
+.navigation .platform-selector:not([data-active]) {
+    color: #fff;
+}
+/* /--- Navigation controls --- */
+/* /--- Navigation styles --- */
+
+/* --- Layout styles --- */
+
+#container {
+    display: flex;
+    flex: 1 1 auto;
+    min-height: 0; /* full height exclude header */
+}
+
+#container > .sidebar, #container > #main {
+    overflow: auto;
+}
+
+#main {
+    display: flex;
+    flex-direction: column;
+    flex: 1 1 0; /* full width, but no affects for sidebar */
+}
+
+.sidebar {
+    display: flex;
+    flex-direction: column;
+    box-sizing: border-box;
+    border-right: 1px solid var(--border-color);
+    width: var(--sidebar-width);
+}
+
+.no-js .sidebar {
+    display: none;
+}
+
+@media (max-width: 759px) {
+    #container {
+        position: relative;
+    }
+
+    .sidebar {
+        position: absolute;
+        top: 0;
+        bottom: 0;
+        box-sizing: border-box;
+        background: var(--background-color);
+        margin-left: calc(-1 * var(--sidebar-width));
+        transition: margin .2s ease-out;
+        z-index: 4;
+    }
+
+    .sidebar.open {
+        margin-left: 0;
+    }
+
+    .sidebar.open ~ #main .navigation-controls--search {
+        display: none;
+    }
+
+    .sidebar.open ~ #main .menu-toggle {
+        margin-left: var(--sidebar-width);
+    }
+}
+
+.sidebar--inner {
+    font-size: 12px;
+    font-weight: 400;
+    line-height: 16px;
+    padding-top: 22px;
+    padding-bottom: 16px;
+}
+/* /--- Layout styles --- */
+
+/* --- Main Content styles --- */
+.main-content {
+    padding-bottom: var(--bottom-spacing);
+    margin-left: auto;
+    margin-right: auto;
+    max-width: var(--max-width);
+    width: 100%;
+    z-index: 0;
+}
+
+.main-content > * {
+    margin-left: var(--horizontal-spacing-for-content);
+    margin-right: var(--horizontal-spacing-for-content);
+}
+
+.main-content .content > hr {
+    margin: 30px 0;
+    border-top: 3px double #8c8b8b;
+}
+
+.main-content :is(h1, h2) {
+    font-weight: 530;
+}
+/* /--- Main Content styles --- */
+
+/* /--- Breadcrumbs styles --- */
+.breadcrumbs, .breadcrumbs a, .breadcrumbs a:hover {
+    margin-top: var(--breadcrumb-margin);
+    color: var(--breadcrumb-font-color);
+    overflow-wrap: break-word;
+}
+
+.breadcrumbs .delimiter {
+    margin: auto 2px;
+}
+
+.breadcrumbs .current {
+    color: var(--default-font-color);
+}
+/* /--- Breadcrumbs styles --- */
+
+.tabs-section,
+.platform-hinted > .platform-bookmarks-row {
+    margin-left: -8px;
+    margin-right: -8px;
+}
+
+.section-tab,
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark {
+    border: 0;
+    padding: 11px 3px;
+    margin: 0 8px;
+    cursor: pointer;
+    outline: none;
+    font-size: var(--default-font-size);
+    background-color: transparent;
+    color: var(--inactive-section-color);
+    border-bottom: 1px solid var(--inactive-tab-border-color);
+}
+
+.platform-hinted > .platform-bookmarks-row {
+    margin-bottom: 16px;
+}
+
+.no-js .platform-bookmarks-row + .sourceset-dependent-content {
+    margin-top: 8px;
+}
+
+.no-js .platform-bookmarks-row + .sourceset-dependent-content:last-of-type {
+    margin-top: 0;
+}
+
+.section-tab:hover {
+    color: var(--default-font-color);
+    border-bottom: 2px solid var(--default-font-color);
+}
+
+.section-tab[data-active=''] {
+    color: var(--active-section-color);
+    border-bottom: 2px solid var(--active-tab-border-color);
+}
+
+.tabs-section-body > div {
+    margin-top: 12px;
+}
+
+.tabs-section-body .with-platform-tabs {
+    padding-top: 12px;
+    padding-bottom: 12px;
+}
+
+.cover > .platform-hinted {
+    padding-bottom: 12px;
+}
+
+.cover {
+    display: flex;
+    flex-direction: column;
+}
+
+.cover .platform-hinted.with-platform-tabs .sourceset-dependent-content > .block ~ .symbol {
+    padding-top: 16px;
+    padding-left: 0;
+}
+
+.cover .sourceset-dependent-content > .block {
+    padding: 16px 0;
+    font-size: 18px;
+    line-height: 28px;
+}
+
+.cover .platform-hinted.with-platform-tabs .sourceset-dependent-content > .block {
+    padding: 0;
+    font-size: var(--default-font-size);
+}
+
+.cover ~ .divergent-group {
+    margin-top: 24px;
+    padding: 24px 8px 8px 8px;
+}
+
+.cover ~ .divergent-group .main-subrow .symbol {
+    width: 100%;
+}
+
+.main-content p.paragraph,
+.sample-container, blockquote,
+.content > .symbol {
+    margin-top: 8px;
+}
+
+blockquote,
+.content > .symbol:first-of-type,
+p.paragraph:first-child,
+.brief p.paragraph {
+    margin-top: 0;
+}
+
+.content .kdoc-tag > p.paragraph {
+    margin-top: 0;
+}
+
+.content h4 {
+    margin-bottom: 0;
+}
+
+.divergent-group {
+    background-color: var(--background-color);
+    padding: 16px 0 8px 0;
+    margin-bottom: 2px;
+}
+
+.divergent-group .table-row, tbody > tr {
+    border-bottom: 1px solid var(--border-color);
+}
+
+.divergent-group .table-row:last-of-type, tbody > tr:last-of-type {
+    border-bottom: none;
+}
+
+.title > .divergent-group:first-of-type {
+    padding-top: 0;
+}
+
+.sample-container, div.CodeMirror {
+    position: relative;
+    display: flex;
+    flex-direction: column;
+}
+
+code.paragraph {
+    display: block;
+}
+
+.overview > .navButton {
+    position: absolute;
+    align-items: center;
+    display: flex;
+    justify-content: flex-end;
+    padding: 2px 2px 2px 0;
+    margin-right: 5px;
+    cursor: pointer;
+}
+
+.strikethrough {
+    text-decoration: line-through;
+}
+
+/* Workaround for Firefox  https://github.com/Kotlin/dokka/issues/3156 */
+@-moz-document url-prefix() {
+    .strikethrough {
+        position: relative;
+        text-decoration: none;
+    }
+
+    /* complex selectors here are required to handle multiline cases */
+    .strikethrough::after, .strikethrough span:after  {
+        content: '';
+        position: absolute;
+        top: 7px;
+        left: 0;
+        right: 0;
+        height: 1px;
+        background-color: currentColor;
+        z-index: 1;
+    }
+}
+
+.symbol:empty {
+    padding: 0;
+}
+
+.symbol:not(.token), code {
+    background-color: var(--code-background);
+    align-items: center;
+    box-sizing: border-box;
+    white-space: pre-wrap;
+    font-family: var(--default-monospace-font-family);
+    font-size: var(--default-font-size);
+}
+
+.symbol:not(.token), code.block {
+    display: block;
+    padding: 12px 32px 12px 12px;
+    border-radius: 8px;
+    line-height: 24px;
+    position: relative;
+}
+
+code {
+    overflow-x: auto;
+    max-width: 100%;
+}
+
+code:not(.block) {
+    display: inline-block;
+    vertical-align: bottom;
+}
+
+.symbol > a {
+    color: var(--hover-link-color);
+}
+
+.copy-icon {
+    cursor: pointer;
+}
+
+.sample-container span.copy-icon {
+    display: none;
+}
+
+.js .sample-container:hover span.copy-icon {
+    display: inline-block;
+}
+
+.sample-container span.copy-icon::before {
+    width: 24px;
+    height: 24px;
+    display: inline-block;
+    content: '';
+    /* masks are required if you want to change color of the icon dynamically instead of using those provided with the SVG */
+    -webkit-mask: url("../images/copy-icon.svg") no-repeat 50% 50%;
+    mask: url("../images/copy-icon.svg") no-repeat 50% 50%;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: var(--copy-icon-color);
+}
+
+.sample-container span.copy-icon:hover::before {
+    background-color: var(--copy-icon-hover-color);
+}
+
+.copy-popup-wrapper {
+    display: none;
+    align-items: center;
+    position: absolute;
+    z-index: 1000;
+    background: var(--background-color);
+    font-weight: normal;
+    font-family: var(--default-font-family);
+    width: max-content;
+    font-size: var(--default-font-size);
+    cursor: default;
+    border: 1px solid #D8DCE1;
+    box-sizing: border-box;
+    box-shadow: 0 5px 10px var(--ring-popup-shadow-color);
+    border-radius: 3px;
+    color: var(--default-font-color);
+}
+
+.copy-popup-wrapper > .copy-popup-icon::before {
+    content: url("../images/copy-successful-icon.svg");
+    padding: 8px;
+}
+
+.copy-popup-wrapper > .copy-popup-icon {
+    position: relative;
+    top: 3px;
+}
+
+.copy-popup-wrapper.popup-to-left {
+    /* since it is in position absolute we can just move it to the left to make it always appear on the left side of the icon */
+    left: -15em;
+}
+
+.table-row:hover .copy-popup-wrapper.active-popup,
+.sample-container:hover .copy-popup-wrapper.active-popup {
+    display: flex !important;
+}
+
+.copy-popup-wrapper:hover {
+    font-weight: normal;
+}
+
+.copy-popup-wrapper > span:last-child {
+    padding-right: 14px;
+}
+
+.symbol .top-right-position, .sample-container .top-right-position {
+    /* it is important for a parent to have a position: relative */
+    position: absolute;
+    top: 8px;
+    right: 8px;
+}
+
+.sideMenuPart > .overview {
+    display: flex;
+    align-items: center;
+    position: relative;
+    user-select: none; /* there's a weird bug with text selection */
+    padding: 8px 0;
+}
+
+.sideMenuPart a {
+    display: block;
+    align-items: center;
+    color: var(--default-font-color);
+    overflow: hidden;
+    padding-left: 23px;
+}
+
+.sideMenuPart a:hover {
+    text-decoration: none;
+    color: var(--default-font-color);
+}
+
+.sideMenuPart > .overview:before {
+    box-sizing: border-box;
+    content: '';
+    top: 0;
+    width: var(--sidebar-width);
+    right: 0;
+    bottom: 0;
+    position: absolute;
+    z-index: -1;
+}
+
+.overview:hover:before {
+    background-color: var(--navigation-highlight-color);
+}
+
+#nav-submenu {
+    padding-left: 24px;
+}
+
+.sideMenuPart {
+    padding-left: 12px;
+    box-sizing: border-box;
+}
+
+.sideMenuPart.hidden > .overview .navButtonContent::before {
+    transform: rotate(0deg);
+}
+
+.sideMenuPart > .overview .navButtonContent::before {
+    content: '';
+
+    -webkit-mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: var(--default-font-color);
+
+    display: flex;
+    flex-direction: row;
+    align-items: center;
+    justify-content: center;
+    transform: rotate(90deg);
+    width: 16px;
+    height: 16px;
+}
+
+.sideMenuPart[data-active] > .overview .navButtonContent::before {
+    background-color: var(--default-white);
+}
+
+.sideMenuPart.hidden > .navButton .navButtonContent::after {
+    content: '\02192';
+}
+
+.sideMenuPart.hidden > .sideMenuPart {
+    display: none;
+}
+
+.overview .nav-link-grid {
+    display: grid;
+    grid-template-columns: 16px auto; /* first is the icon, then name */
+    grid-gap: 6px;
+    align-items: center;
+}
+
+.nav-icon {
+    width: 16px;
+    height: 16px;
+}
+
+.nav-icon.class::before {
+    content: url("../images/nav-icons/class.svg");
+}
+
+.nav-icon.class-kt::before {
+    content: url("../images/nav-icons/class-kotlin.svg");
+}
+
+.nav-icon.function::before {
+    content: url("../images/nav-icons/function.svg");
+}
+
+.nav-icon.enum-class::before {
+    content: url("../images/nav-icons/enum.svg");
+}
+
+.nav-icon.enum-class-kt::before {
+    content: url("../images/nav-icons/enum-kotlin.svg");
+}
+
+.nav-icon.annotation-class::before {
+    content: url("../images/nav-icons/annotation.svg");
+}
+
+.nav-icon.annotation-class-kt::before {
+    content: url("../images/nav-icons/annotation-kotlin.svg");
+}
+
+.nav-icon.abstract-class::before {
+    content: url("../images/nav-icons/abstract-class.svg");
+}
+
+.nav-icon.abstract-class-kt::before {
+    content: url("../images/nav-icons/abstract-class-kotlin.svg");
+}
+
+.nav-icon.exception-class::before {
+    content: url("../images/nav-icons/exception-class.svg");
+}
+
+.nav-icon.interface::before {
+    content: url("../images/nav-icons/interface.svg");
+}
+
+.nav-icon.interface-kt::before {
+    content: url("../images/nav-icons/interface-kotlin.svg");
+}
+
+.nav-icon.object::before {
+    content: url("../images/nav-icons/object.svg");
+}
+
+.nav-icon.typealias-kt::before {
+    content: url("../images/nav-icons/typealias-kotlin.svg");
+}
+
+.nav-icon.val::before {
+    content: url("../images/nav-icons/field-value.svg");
+}
+
+.nav-icon.var::before {
+    content: url("../images/nav-icons/field-variable.svg");
+}
+
+.filtered > a, .filtered > .navButton {
+    display: none;
+}
+
+
+.brief {
+    white-space: pre-wrap;
+    overflow: hidden;
+}
+
+h1.cover {
+    font-size: 52px;
+    line-height: 56px;
+    letter-spacing: -1.5px;
+    margin-bottom: 0;
+    padding-bottom: 32px;
+    display: block;
+}
+
+@media (max-width: 1119px) {
+    h1.cover {
+        font-size: 48px;
+        line-height: 48px;
+        padding-bottom: 8px;
+    }
+}
+
+@media (max-width: 759px) {
+    h1.cover {
+        font-size: 32px;
+        line-height: 32px;
+    }
+}
+
+.UnderCoverText {
+    font-size: 16px;
+    line-height: 28px;
+}
+
+.UnderCoverText code {
+    font-size: inherit;
+}
+
+.UnderCoverText table {
+    margin: 8px 0 8px 0;
+    word-break: break-word;
+}
+
+@media (max-width: 960px) {
+    .UnderCoverText table {
+        display: block;
+        word-break: normal;
+        overflow:  auto;
+    }
+}
+
+.main-content a:not([data-name]) {
+    padding-bottom: 2px;
+    border-bottom: 1px solid var(--border-color);
+    cursor: pointer;
+    text-decoration: none;
+    color: inherit;
+    font-size: inherit;
+    line-height: inherit;
+    transition: color .1s, border-color .1s;
+}
+
+.main-content a:hover {
+    border-bottom-color: unset;
+    color: inherit
+}
+
+a small {
+    font-size: 11px;
+    margin-top: -0.6em;
+    display: block;
+}
+
+p.paragraph img {
+    display: block;
+}
+
+.deprecation-content {
+    margin: 20px 10px;
+    border:1px solid var(--border-color);
+    padding: 13px 15px 16px 15px;
+}
+
+.deprecation-content > h3 {
+    margin-top: 0;
+    margin-bottom: 0;
+}
+
+.deprecation-content > h4 {
+    font-size: 16px;
+    margin-top: 15px;
+    margin-bottom: 0;
+}
+
+.deprecation-content code.block {
+    padding: 5px 10px;
+    display: inline-block;
+}
+
+.deprecation-content .footnote {
+    margin-left: 25px;
+    font-size: 13px;
+    font-weight: bold;
+    display: block;
+}
+
+.deprecation-content .footnote > p {
+    margin: 0;
+}
+
+[data-filterable-current=''] {
+    display: none !important;
+}
+
+.platform-tags, .filter-section {
+    display: flex;
+    flex-wrap: wrap;
+    margin-bottom: -8px;
+    margin-left: -4px;
+}
+
+.platform-tag {
+    --platform-tag-color: #bababb;
+    border: 0 none;
+    margin-right: 4px;
+    margin-bottom: 8px;
+
+    font-family: var(--default-font-family);
+    font-size: 13px;
+    line-height: 1.5;
+    text-transform: capitalize;
+}
+
+.platform-tag.js-like, .platform-tag.jvm-like, .platform-tag.wasm-like {
+    text-transform: uppercase;
+}
+
+.filter-section .platform-tag {
+    cursor: pointer;
+    border-radius: 4px;
+    padding: 2px 16px;
+}
+
+.filter-section .platform-tag.jvm-like[data-active], .platform-tags .platform-tag.jvm-like {
+    --platform-tag-color: #4dbb5f;
+}
+
+.filter-section .platform-tag.js-like[data-active], .platform-tags .platform-tag.js-like {
+    --platform-tag-color: #ffc700;
+}
+
+.filter-section .platform-tag.native-like[data-active], .platform-tags .platform-tag.native-like {
+    --platform-tag-color: #E082F3;
+}
+
+.filter-section .platform-tag.wasm-like[data-active], .platform-tags .platform-tag.wasm-like {
+    --platform-tag-color: #9585F9;
+}
+
+.filter-section .platform-tag[data-active]:hover {
+    color: #fff;
+    background-color: rgba(186, 186, 187, .7);
+}
+
+.filter-section .platform-tag:not([data-active]) {
+    color: #fff;
+    /* Safari doesn't work correctly for `outline` with `border-radius` */
+    /* outline: 1px solid rgba(255,255,255,.6); */
+    /* ...use `box-shadow` instead: */
+    box-shadow: 0 0 0 1px rgb(255 255 255 / 60%);
+    background-color: rgba(255,255,255,.05);
+}
+
+.filter-section .platform-tag[data-active] {
+    color: #19191c;
+    background-color: var(--platform-tag-color);
+}
+
+.platform-tags .platform-tag {
+    display: flex;
+    align-items: center;
+}
+
+.platform-tags .platform-tag::before {
+    display: inline-block;
+    content: '';
+    border-radius: 50%;
+    background: var(--platform-tag-color);
+    margin: 0 4px 0 8px;
+    height: 8px;
+    width: 8px;
+
+    font-size: 13px;
+    line-height: 1.6;
+}
+
+td.content {
+    padding-left: 24px;
+    padding-top: 16px;
+    display: flex;
+    flex-direction: column;
+}
+
+.main-subrow {
+    display: flex;
+    flex-direction: row;
+    padding: 0;
+    flex-wrap: wrap;
+}
+
+.main-subrow > div {
+    margin-bottom: 8px;
+}
+
+.main-subrow > div > span {
+    display: flex;
+    position: relative;
+}
+
+.js .main-subrow:hover .anchor-icon {
+    opacity: 1;
+    transition: 0.2s;
+}
+
+.main-subrow .anchor-icon {
+    opacity: 0;
+    transition: 0.2s 0.5s;
+}
+
+.main-subrow .anchor-icon::before {
+    content: url("../images/anchor-copy-button.svg");
+}
+
+.main-subrow .anchor-icon:hover {
+    cursor: pointer;
+}
+
+.main-subrow .anchor-icon:hover > svg path {
+    fill: var(--hover-link-color);
+}
+
+@media (hover: none) {
+    .main-subrow .anchor-icon {
+        display: none;
+    }
+}
+
+.main-subrow .anchor-wrapper {
+    position: relative;
+    width: 24px;
+    height: 16px;
+    margin-left: 3px;
+}
+
+.inline-flex {
+    display: inline-flex;
+}
+
+.platform-hinted {
+    flex: auto;
+    display: block;
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark {
+    min-width: 64px;
+    background: inherit;
+    flex: none;
+    order: 5;
+    align-self: flex-start;
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark:hover {
+    color: var(--default-font-color);
+    border-bottom: 2px solid var(--default-font-color);
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark[data-active=''] {
+    border-bottom: 2px solid var(--active-tab-border-color);
+    color: var(--active-section-color);
+}
+
+.no-js .platform-bookmarks-row, .no-js .tabs-section {
+    display: none;
+}
+
+.js .platform-hinted > .content:not([data-active]),
+.js .tabs-section-body *[data-togglable]:not([data-active]) {
+    display: none;
+}
+
+/* Work around an issue: https://github.com/JetBrains/kotlin-playground/issues/91
+Applies for main description blocks with platform tabs.
+Just in case of possible performance degradation it excluding tabs with briefs on classlike page */
+#content > div:not(.tabbedcontent) .sourceset-dependent-content:not([data-active]) {
+    display: block !important;
+    visibility: hidden;
+    height: 0;
+    position: fixed;
+    top: 0;
+}
+
+.with-platform-tags {
+    display: flex;
+}
+
+.with-platform-tags ~ .main-subrow {
+    padding-top: 8px;
+}
+
+.cover .with-platform-tabs {
+    font-size: var(--default-font-size);
+}
+
+.cover > .with-platform-tabs > .content {
+    padding: 8px 16px;
+    border: 1px solid var(--border-color);
+}
+
+.cover > .block {
+    padding-top: 48px;
+    padding-bottom: 24px;
+    font-size: 18px;
+    line-height: 28px;
+}
+
+.cover > .block:empty {
+    padding-bottom: 0;
+}
+
+.parameters.wrapped > .parameter {
+    display: block;
+}
+
+.table-row .inline-comment {
+    padding-top: 8px;
+    padding-bottom: 8px;
+}
+
+.table-row .platform-hinted .sourceset-dependent-content .brief,
+.table-row .platform-hinted .sourceset-dependent-content .inline-comment {
+    padding: 8px;
+}
+
+.sideMenuPart[data-active] > .overview:before {
+    background: var(--sidemenu-section-active-color);
+}
+
+.sideMenuPart[data-active] > .overview > a {
+    color: var(--default-white);
+}
+
+.table {
+    display: flex;
+    flex-direction: column;
+}
+
+.table-row {
+    display: flex;
+    flex-direction: column;
+    border-bottom: 1px solid var(--border-color);
+    padding: 11px 0 12px 0;
+    background-color: var(--background-color);
+}
+
+.table-row:last-of-type {
+    border-bottom: none;
+}
+
+.table-row .brief-comment {
+    color: var(--brief-color);
+}
+
+.platform-dependent-row {
+    display: grid;
+    padding-top: 8px;
+}
+
+.title-row {
+    display: grid;
+    grid-template-columns: auto auto 7em;
+    width: 100%;
+}
+
+@media print, (min-width: 960px) {
+    .title-row {
+        grid-template-columns: 20% auto 7em;
+    }
+}
+
+.keyValue {
+    display: grid;
+    grid-gap: 8px;
+}
+
+@media print, (min-width: 960px) {
+    .keyValue {
+        grid-template-columns: 20% 80%;
+    }
+    .keyValue > div:first-child {
+        word-break: break-word;
+    }
+}
+
+@media print, (max-width: 960px) {
+    div.wrapper {
+        width: auto;
+        margin: 0;
+    }
+
+    header, section, footer {
+        float: none;
+        position: static;
+        width: auto;
+    }
+
+    header {
+        padding-right: 320px;
+    }
+
+    section {
+        border: 1px solid #e5e5e5;
+        border-width: 1px 0;
+        padding: 20px 0;
+        margin: 0 0 20px;
+    }
+
+    header a small {
+        display: inline;
+    }
+
+    header ul {
+        position: absolute;
+        right: 50px;
+        top: 52px;
+    }
+}
+
+.anchor-highlight {
+    border: 1px solid var(--hover-link-color) !important;
+    box-shadow: 0 0 0 0.2em #c8e1ff;
+    margin-top: 0.2em;
+    margin-bottom: 0.2em;
+}
+
+.filtered-message {
+    margin: 25px;
+    font-size: 20px;
+    font-weight: bolder;
+}
+
+div.runnablesample {
+    height: fit-content;
+}
+
+/* --- footer --- */
+.footer {
+    clear: both;
+    display: flex;
+    align-items: center;
+    position: relative;
+    min-height: var(--footer-height);
+    font-size: 12px;
+    line-height: 16px;
+    letter-spacing: 0.2px;
+    color: var(--footer-font-color);
+    margin-top: auto;
+    background-color: var(--footer-background);
+}
+
+.footer span.go-to-top-icon {
+    border-radius: 2em;
+    padding: 11px 10px !important;
+    background-color: var(--footer-go-to-top-color);
+}
+
+.footer span.go-to-top-icon > a::before {
+    content: url("../images/go-to-top-icon.svg");
+}
+
+.footer > span:first-child {
+    margin-left: var(--horizontal-spacing-for-content);
+    padding-left: 0;
+}
+
+.footer > span:last-child {
+    margin-right: var(--horizontal-spacing-for-content);
+    padding-right: 0;
+}
+
+.footer > span {
+    padding: 0 16px;
+}
+
+.footer a {
+    color: var(--breadcrumb-font-color);
+}
+
+.footer span.go-to-top-icon > #go-to-top-link {
+    padding: 0;
+    border: none;
+}
+
+.footer .padded-icon {
+    padding-left: 0.5em;
+}
+
+.footer .padded-icon::before {
+    content: url("../images/footer-go-to-link.svg");
+}
+/* /--- footer --- */
+
+/* Logo styles */
+:root {
+    --dokka-logo-image-url: url('../images/logo-icon.svg');
+    --dokka-logo-height: 50px;
+    --dokka-logo-width: 50px;
+}
+
+.library-name--link {
+    display: flex;
+    align-items: center;
+    color: #fff;
+    font-weight: 530;
+}
+
+.library-name--link::before {
+    content: '';
+    background: var(--dokka-logo-image-url) center no-repeat;
+    background-size: var(--dokka-logo-height) var(--dokka-logo-width);
+    margin-right: 5px;
+    width: var(--dokka-logo-height);
+    height: var(--dokka-logo-width);
+}
+
+@media (max-width: 759px) {
+    .library-name--link::before {
+        display: none;
+    }
+}
+/* / Logo styles */
+
+/*
+the hack to hide the headers inside tabs for a package page because each tab
+has only one header, and the header text is the same as the tab name, so no point in showing it
+*/
+.main-content[data-page-type="package"] .tabs-section-body h2 {
+    display: none;
+}
diff --git a/docs/dokka/v0.2.0/older/v0.1.0/version.json b/docs/dokka/v0.2.0/older/v0.1.0/version.json
new file mode 100644
index 00000000..f64ae35c
--- /dev/null
+++ b/docs/dokka/v0.2.0/older/v0.1.0/version.json
@@ -0,0 +1 @@
+{"version":"v0.1.0"}
\ No newline at end of file
diff --git a/docs/dokka/v0.2.0/scripts/clipboard.js b/docs/dokka/v0.2.0/scripts/clipboard.js
new file mode 100644
index 00000000..7a4f33c5
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/clipboard.js
@@ -0,0 +1,56 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+window.addEventListener('load', () => {
+    document.querySelectorAll('span.copy-icon').forEach(element => {
+        element.addEventListener('click', (el) => copyElementsContentToClipboard(element));
+    })
+
+    document.querySelectorAll('span.anchor-icon').forEach(element => {
+        element.addEventListener('click', (el) => {
+            if(element.hasAttribute('pointing-to')){
+                const location = hrefWithoutCurrentlyUsedAnchor() + '#' + element.getAttribute('pointing-to')
+                copyTextToClipboard(element, location)
+            }
+        });
+    })
+})
+
+const copyElementsContentToClipboard = (element) => {
+    const selection = window.getSelection();
+    const range = document.createRange();
+    range.selectNodeContents(element.parentNode.parentNode);
+    selection.removeAllRanges();
+    selection.addRange(range);
+
+    copyAndShowPopup(element,  () => selection.removeAllRanges())
+}
+
+const copyTextToClipboard = (element, text) => {
+    var textarea = document.createElement("textarea");
+    textarea.textContent = text;
+    textarea.style.position = "fixed";
+    document.body.appendChild(textarea);
+    textarea.select();
+
+    copyAndShowPopup(element, () => document.body.removeChild(textarea))
+}
+
+const copyAndShowPopup = (element, after) => {
+    try {
+        document.execCommand('copy');
+        element.nextElementSibling.classList.add('active-popup');
+        setTimeout(() => {
+            element.nextElementSibling.classList.remove('active-popup');
+        }, 1200);
+    } catch (e) {
+        console.error('Failed to write to clipboard:', e)
+    }
+    finally {
+        if(after) after()
+    }
+}
+
+const hrefWithoutCurrentlyUsedAnchor = () => window.location.href.split('#')[0]
+
diff --git a/docs/dokka/v0.2.0/scripts/main.js b/docs/dokka/v0.2.0/scripts/main.js
new file mode 100644
index 00000000..ba6c3473
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/main.js
@@ -0,0 +1,44 @@
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+  Licensed under the MIT License (MIT), see
+  http://jedwatson.github.io/classnames
+*/!function(){"use strict";var r={}.hasOwnProperty;function o(){for(var e=[],n=0;n<arguments.length;n++){var t=arguments[n];if(t){var i=typeof t;if("string"===i||"number"===i)e.push(t);else if(Array.isArray(t)){if(t.length){var a=o.apply(null,t);a&&e.push(a)}}else if("object"===i)if(t.toString===Object.prototype.toString)for(var l in t)r.call(t,l)&&t[l]&&e.push(l);else e.push(t.toString())}}return e.join(" ")}e.exports?(o.default=o,e.exports=o):void 0===(t=function(){return o}.apply(n,[]))||(e.exports=t)}()},8736:(e,n,t)=>{"use strict";e.exports=function(e,n){var t=this,r=t.constructor;return 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{.buttonGroup_fbe4 .button_ea9a:hover {\n      z-index: 2;\n      z-index: var(--ring-button-group-hover-z-index);\n    }}\n\n.buttonGroup_fbe4 .button_ea9a:focus {\n      z-index: 3;\n      z-index: var(--ring-button-group-focus-z-index);\n    }\n\n.buttonGroup_fbe4 .active_be1c {\n    z-index: 1;\n    z-index: var(--ring-button-group-active-z-index);\n  }\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button-group/button-group.css","<no source>"],names:[],mappings:"AAIA;EACE,sCAAsC;EACtC,wCAAwC;EACxC,qCAAqC;EACrC,oCAAoC;EACpC,oCAAoC;AACtC;;AAEA;;EAGE,kBAAkB;EAClB,UAAU;;EAEV,qBAAqB;;EAErB,mBAAmB;AACrB;;AAEA;;EAEE,kBAAkB;;EAElB,gBAAgB;AAClB;;AAEA;;EAGE,iBAAkB;;EAElB;AAKF;;AAHE;IACE,eAAe;EACjB;;AAGF;;;;EAIE,SAAS;;EAET,iDAAiD;EACjD,oDAAoD;AACtD;;AAEA;;;EAGE,kDAAkD;EAClD,qDAAqD;AACvD;;AAGE;IACE,kBAAkB;IAClB,UAAiD;IAAjD;EAiBF;;AAfE;MACE,WAAkD;MAAlD,kDAAkD;IACpD;;AAEA;MACE,UAAgD;MAAhD,gDAAgD;IAClD;;ACtEJ,wGAAA;MAAA,WAAA;MAAA,gDAAA;KAAA,CAAA;;AD4EI;MACE,UAA+C;MAA/C,+CAA+C;IACjD;;AAGF;IACE,UAAgD;IAAhD,gDAAgD;EAClD",sourcesContent:['@import "../global/variables.css";\n\n@value unit from "../global/global.css";\n\n:root {\n  --ring-button-group-default-z-index: 0;\n  --ring-button-group-disabled-z-index: -1;\n  --ring-button-group-active-z-index: 1;\n  --ring-button-group-hover-z-index: 2;\n  --ring-button-group-focus-z-index: 3;\n}\n\n.buttonGroup {\n  composes: buttonGroup from "../button-toolbar/button-toolbar.css";\n\n  position: relative;\n  z-index: 0;\n\n  display: inline-block;\n\n  white-space: nowrap;\n}\n\n.buttonGroup button,\n.buttonGroup .button {\n  margin: 0 0 0 -1px;\n\n  border-radius: 0;\n}\n\n.caption {\n  composes: font from "../global/global.css";\n\n  margin-right: unit;\n\n  font-size: var(--ring-font-size);\n\n  &:empty {\n    margin-right: 0;\n  }\n}\n\n.buttonGroup > .caption + .button,\n.buttonGroup > button:first-child,\n.buttonGroup > .button:first-child,\n.buttonGroup > :first-child .button {\n  margin: 0;\n\n  border-top-left-radius: var(--ring-border-radius);\n  border-bottom-left-radius: var(--ring-border-radius);\n}\n\n.buttonGroup > .button:last-child,\n.buttonGroup > button:last-child,\n.buttonGroup > :last-child .button {\n  border-top-right-radius: var(--ring-border-radius);\n  border-bottom-right-radius: var(--ring-border-radius);\n}\n\n.buttonGroup {\n  & .button {\n    position: relative;\n    z-index: var(--ring-button-group-default-z-index);\n\n    &[disabled] {\n      z-index: var(--ring-button-group-disabled-z-index);\n    }\n\n    &:active {\n      z-index: var(--ring-button-group-active-z-index);\n    }\n\n    &:hover {\n      z-index: var(--ring-button-group-hover-z-index);\n    }\n\n    &:focus {\n      z-index: var(--ring-button-group-focus-z-index);\n    }\n  }\n\n  & .active {\n    z-index: var(--ring-button-group-active-z-index);\n  }\n}\n',null],sourceRoot:""}]),s.locals={unit:""+l.default.locals.unit,buttonGroup:"buttonGroup_fbe4 "+c.Z.locals.buttonGroup,button:"button_ea9a",caption:"caption_c8e1 "+l.default.locals.font,active:"active_be1c"};const f=s},135:(e,n,t)=>{"use strict";t.d(n,{Z:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".buttonSet_f415 {\n  position: relative;\n\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0\n}\n\n.buttonSet_f415 .button_f403 {\n    margin: 0 8px 0 0;\n  }\n\n.buttonSet_f415 > .button_f403:last-child {\n    margin-right: 0;\n  }\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button-set/button-set.css"],names:[],mappings:"AAIA;EACE,kBAAkB;;EAElB,qBAAqB;;EAErB,mBAAmB;;EAEnB;AASF;;AAPE;IACE,iBAAkB;EACpB;;AAEA;IACE,eAAe;EACjB",sourcesContent:['@import "../global/variables.css";\n\n@value unit from "../global/global.css";\n\n.buttonSet {\n  position: relative;\n\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n\n  & .button {\n    margin: 0 unit 0 0;\n  }\n\n  & > .button:last-child {\n    margin-right: 0;\n  }\n}\n'],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,buttonSet:"buttonSet_f415",button:"button_f403"};const s=u},9131:(e,n,t)=>{"use strict";t.d(n,{Z:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".buttonToolbar_f09a {\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n}\n\n.buttonToolbar_f09a > button,\n.buttonToolbar_f09a > .ring-button-group,\n.buttonToolbar_f09a > .button_fc1d,\n.buttonToolbar_f09a > .buttonGroup_c55b,\n.buttonToolbar_f09a > .buttonToolbar_f09a {\n  margin-right: 8px;\n}\n\n.buttonToolbar_f09a > :last-child {\n  margin-right: 0;\n}\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button-toolbar/button-toolbar.css"],names:[],mappings:"AAIA;EACE,qBAAqB;;EAErB,mBAAmB;;EAEnB,YAAY;AACd;;AAEA;;;;;EAKE,iBAAkB;AACpB;;AAEA;EACE,eAAe;AACjB",sourcesContent:['@import "../global/variables.css";\n\n@value unit from "../global/global.css";\n\n.buttonToolbar {\n  display: inline-block;\n\n  white-space: nowrap;\n\n  font-size: 0;\n}\n\n.buttonToolbar > button,\n.buttonToolbar > :global(.ring-button-group),\n.buttonToolbar > .button,\n.buttonToolbar > .buttonGroup,\n.buttonToolbar > .buttonToolbar {\n  margin-right: unit;\n}\n\n.buttonToolbar > :last-child {\n  margin-right: 0;\n}\n'],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,buttonToolbar:"buttonToolbar_f09a",button:"button_fc1d",buttonGroup:"buttonGroup_c55b"};const s=u},8199:(e,n,t)=>{"use strict";t.r(n),t.d(n,{default:()=>d});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(5469),u=t(135),s=t(9131),f=t(3181),p=a()(o());p.i(f.Z),p.i(l.default,"",!0),p.i(c.Z,"",!0),p.i(u.Z,"",!0),p.i(s.Z,"",!0),p.push([e.id,':root {\n  /* TODO: This colors are not ready to move to variables.css */\n  /* stylelint-disable color-no-hex */\n  --ring-button-primary-background-color: #1a98ff;\n  --ring-button-primary-border-color: #0062b2;\n  --ring-button-danger-active-color: #ffe7e8;\n  --ring-button-danger-hover-color: var(--ring-icon-error-color);\n  --ring-button-loader-background: #33a3ff;\n  --ring-button-dark-icon-color: #80929d;\n  --ring-button-dark-border-disabled-color: #333;\n  --ring-button-dark-icon-disabled-color: var(--ring-dark-disabled-color);\n  --ring-button-dark-danger-active-color: #26080a;\n  --ring-button-dark-danger-hover-color: var(--ring-error-color);\n  --ring-button-dark-active-color: #062640;\n  --ring-button-dark-loader-background: #002039;\n  /* stylelint-enable color-no-hex */\n}\n\n.light_b3b0 {\n  color: var(--ring-text-color);\n  background-color: var(--ring-content-background-color);\n  box-shadow: inset 0 0 0 1px var(--ring-borders-color)\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.light_b3b0:hover {\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }}\n\n.light_b3b0:active,\n  .light_b3b0.active_bbe6 {\n    background-color: var(--ring-selected-background-color);\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.light_b3b0.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color), 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.light_b3b0[disabled] {\n    box-shadow: inset 0 0 0 1px var(--ring-border-disabled-color);\n  }\n\n.light_b3b0[disabled],\n  .light_b3b0[disabled].withIcon_ef77 {\n    color: var(--ring-disabled-color);\n  }\n\n.light_b3b0[disabled] .icon_e878 {\n    color: var(--ring-icon-disabled-color);\n  }\n\n.light_b3b0.primary_ddae:active,\n  .light_b3b0.primary_ddae.active_bbe6 {\n    background-color: #1a98ff;\n    background-color: var(--ring-button-primary-background-color);\n    box-shadow: inset 0 0 0 1px #0062b2;\n    box-shadow: inset 0 0 0 1px var(--ring-button-primary-border-color);\n  }\n\n.light_b3b0.danger_bcea:active,\n  .light_b3b0.danger_bcea.active_bbe6 {\n    background-color: #ffe7e8;\n    background-color: var(--ring-button-danger-active-color);\n  }\n\n.light_b3b0.danger_bcea:active,\n  .light_b3b0.danger_bcea.active_bbe6,\n  .light_b3b0.danger_bcea.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-icon-error-color);\n    box-shadow: inset 0 0 0 1px var(--ring-button-danger-hover-color);\n  }\n\n.light_b3b0.withIcon_ef77 {\n    color: var(--ring-secondary-color);\n  }\n\n.light_b3b0 .loaderBackground_d9f5::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-content-background-color),\n        var(--ring-selected-background-color) 40%,\n        var(--ring-content-background-color) 80%\n      );\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.light_b3b0.danger_bcea:hover {\n  box-shadow: inset 0 0 0 1px var(--ring-icon-error-color);\n  box-shadow: inset 0 0 0 1px var(--ring-button-danger-hover-color);\n}}\n\n.dark_e616 {\n  color: var(--ring-dark-secondary-color);\n  background-color: var(--ring-navigation-background-color);\n  box-shadow: inset 0 0 0 1px var(--ring-dark-borders-color)\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.dark_e616:hover {\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color);\n  }}\n\n.dark_e616:active,\n  .dark_e616.active_bbe6 {\n    color: var(--ring-dark-text-color);\n    background-color: #062640;\n    background-color: var(--ring-button-dark-active-color);\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n.dark_e616.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-dark-border-hover-color), 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n.dark_e616[disabled] {\n    box-shadow: inset 0 0 0 1px #333;\n    box-shadow: inset 0 0 0 1px var(--ring-button-dark-border-disabled-color);\n  }\n\n.dark_e616[disabled],\n  .dark_e616[disabled].withIcon_ef77 {\n    color: var(--ring-dark-disabled-color);\n  }\n\n.dark_e616[disabled] .icon_e878 {\n    color: var(--ring-dark-disabled-color);\n    color: var(--ring-button-dark-icon-disabled-color);\n  }\n\n.dark_e616.primary_ddae:active,\n  .dark_e616.primary_ddae.active_bbe6 {\n    background-color: var(--ring-main-hover-color);\n    box-shadow: inset 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n.dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6 {\n    color: var(--ring-icon-error-color);\n    background-color: #26080a;\n    background-color: var(--ring-button-dark-danger-active-color);\n  }\n\n.dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6,\n  .dark_e616.danger_bcea.focus-visible {\n    box-shadow: inset 0 0 0 1px var(--ring-error-color);\n    box-shadow: inset 0 0 0 1px var(--ring-button-dark-danger-hover-color);\n  }\n\n.dark_e616.withIcon_ef77 {\n    color: var(--ring-dark-secondary-color);\n  }\n\n.dark_e616 .loaderBackground_d9f5::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        #002039 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        var(--ring-button-dark-loader-background) 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n  }\n\n.dark_e616 .dropdownIcon_e982 {\n    color: var(--ring-dark-secondary-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.dark_e616.danger_bcea:hover {\n  box-shadow: inset 0 0 0 1px var(--ring-error-color);\n  box-shadow: inset 0 0 0 1px var(--ring-button-dark-danger-hover-color);\n}}\n\n.button_aba4 {\n\n  position: relative;\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  height: 24px;\n  margin: 0;\n  padding: 0 16px;\n\n  cursor: pointer;\n  transition: color var(--ring-ease), background-color var(--ring-ease), box-shadow var(--ring-ease);\n  text-decoration: none;\n\n  border: 0;\n  border-radius: var(--ring-border-radius);\n  outline: 0;\n\n  font-family: var(--ring-font-family);\n  font-size: var(--ring-font-size-smaller);\n\n  line-height: 24px\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.button_aba4:hover {\n    transition: none;\n  }}\n\n.button_aba4.focus-visible {\n    transition: none;\n  }\n\n.button_aba4[disabled] {\n    pointer-events: none;\n  }\n\n.button_aba4::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n    outline: 0;\n  }\n\n.active_bbe6 {\n}\n\n.primary_ddae {\n  color: var(--ring-dark-text-color);\n  background-color: var(--ring-main-color);\n  box-shadow: none\n}\n\n.primary_ddae.withIcon_ef77,\n  .primary_ddae.withIcon_ef77:active,\n  .primary_ddae.withIcon_ef77.active_bbe6 {\n    color: var(--ring-main-color);\n  }\n\n.primary_ddae.focus-visible {\n    transition: none;\n\n    background-color: var(--ring-main-hover-color);\n    box-shadow: none;\n  }\n\n.primary_ddae[disabled] {\n    background-color: var(--ring-content-background-color);\n    box-shadow: inset 0 0 0 1px var(--ring-borders-color);\n  }\n\n.primary_ddae[disabled].loader_cbfc {\n    color: var(--ring-dark-text-color);\n  }\n\n.primary_ddae .loaderBackground_d9f5 {\n    top: 0;\n    right: 0;\n    bottom: 0;\n    left: 0;\n\n    border-radius: var(--ring-border-radius)\n  }\n\n.primary_ddae .loaderBackground_d9f5::before {\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          #33a3ff 40%,\n          var(--ring-main-color) 80%\n        );\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          var(--ring-button-loader-background) 40%,\n          var(--ring-main-color) 80%\n        );\n    }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.primary_ddae:hover {\n  transition: none;\n\n  background-color: var(--ring-main-hover-color);\n  box-shadow: none;\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.danger_bcea:hover {\n    transition: none;\n  }}\n\n.danger_bcea,\n  .danger_bcea.withIcon_ef77,\n  .danger_bcea.withIcon_ef77:active,\n  .danger_bcea.withIcon_ef77.active_bbe6,\n  .danger_bcea.text_fc2a,\n  .danger_bcea.text_fc2a:active,\n  .danger_bcea.text_fc2a.active_bbe6 {\n    color: var(--ring-error-color);\n  }\n\n.danger_bcea.focus-visible {\n    transition: none;\n  }\n\n.dark_e616.danger_bcea,\n  .dark_e616.danger_bcea:active,\n  .dark_e616.danger_bcea.active_bbe6 {\n    color: var(--ring-icon-error-color);\n  }\n\n.text_fc2a.text_fc2a,\n.withIcon_ef77.withIcon_ef77 {\n  background-color: transparent;\n  box-shadow: none\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77):hover {\n    transition: none;\n  }}\n\n:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77):active,\n  :is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77).active_bbe6 {\n    background-color: transparent;\n    box-shadow: none;\n  }\n\n:is(.text_fc2a.text_fc2a,.withIcon_ef77.withIcon_ef77).focus-visible {\n    box-shadow: inset 0 0 0 2px var(--ring-border-hover-color);\n  }\n\n.loader_cbfc.text_fc2a > .content_b2b8 {\n  -webkit-animation-name: text-loading_d1b4;\n          animation-name: text-loading_d1b4;\n  -webkit-animation-duration: 1200ms;\n          animation-duration: 1200ms;\n  -webkit-animation-iteration-count: infinite;\n          animation-iteration-count: infinite;\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.text_fc2a.text_fc2a:hover {\n  background-color: transparent;\n  box-shadow: none;\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withIcon_ef77:hover:not(.focus-visible) {\n  background-color: transparent;\n  box-shadow: none;\n}}\n\n.text_fc2a {\n  color: var(--ring-main-color);\n}\n\n.inline_b4a2 {\n  display: inline-block;\n\n  margin: 0;\n  padding: 0;\n\n  font-size: var(--ring-font-size);\n}\n\n.withIcon_ef77 {\n  padding: 0 8px;\n}\n\n.text_fc2a:active,\n  .text_fc2a.active_bbe6 {\n    color: var(--ring-link-hover-color);\n  }\n\n.withIcon_ef77:active,\n  .withIcon_ef77.active_bbe6 {\n    color: var(--ring-main-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withIcon_ef77:hover {\n  color: var(--ring-link-hover-color);\n}}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.text_fc2a:hover {\n  color: var(--ring-link-hover-color);\n}}\n\n.icon_e878 {\n  color: inherit;\n\n  line-height: normal\n}\n\n.icon_e878:not(:last-child) {\n    margin-right: 4px;\n  }\n\n.withNormalIconLight_d71b .icon_e878 {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-color);\n}\n\n.withNormalIconDark_a9e5 .icon_e878 {\n  transition: color var(--ring-ease);\n\n  color: #80929d;\n\n  color: var(--ring-button-dark-icon-color);\n}\n\n.withNormalIconLight_d71b:active,\n.withNormalIconLight_d71b.active_bbe6,\n.withNormalIconDark_a9e5:active,\n.withNormalIconDark_a9e5.active_bbe6 {\n  color: var(--ring-main-color)\n}\n\n:is(.withNormalIconLight_d71b:active,.withNormalIconLight_d71b.active_bbe6,.withNormalIconDark_a9e5:active,.withNormalIconDark_a9e5.active_bbe6) .icon_e878 {\n    transition: none;\n\n    color: inherit;\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.withNormalIconLight_d71b:hover .icon_e878,\n.withNormalIconDark_a9e5:hover .icon_e878,\n.withDangerIconLight_c37c:hover .icon_e878,\n.withDangerIconDark_e5a4:hover .icon_e878 {\n  transition: none;\n\n  color: inherit;\n}}\n\n.withDangerIconLight_c37c .icon_e878,\n.withDangerIconLight_c37c:active .icon_e878 {\n  color: var(--ring-icon-error-color);\n}\n\n.withDangerIconDark_e5a4 .icon_e878,\n.withDangerIconDark_e5a4:active .icon_e878 {\n  color: var(--ring-error-color);\n}\n\n.loader_cbfc {\n  position: relative;\n  z-index: 0;\n\n  pointer-events: none;\n\n  background-color: transparent;\n}\n\n.loaderBackground_d9f5 {\n  position: absolute;\n  z-index: -1;\n  top: 1px;\n  right: 1px;\n  bottom: 1px;\n  left: 1px;\n\n  overflow: hidden;\n\n  border-radius: var(--ring-border-radius-small)\n}\n\n.loaderBackground_d9f5::before {\n    display: block;\n\n    width: calc(100% + 64px);\n    height: 100%;\n\n    content: "";\n    -webkit-animation: progress_ed8f 1s linear infinite;\n            animation: progress_ed8f 1s linear infinite;\n\n    background-repeat: repeat;\n    background-size: 64px;\n  }\n\n.delayed_d562 .content_b2b8::after {\n  content: "…";\n}\n\n.short_a07a {\n  width: 32px;\n  padding: 0;\n}\n\n.dropdownIcon_e982 {\n  margin-right: -2px;\n\n  margin-left: 2px;\n\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-secondary-color);\n\n  line-height: normal;\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.button_aba4:hover .dropdownIcon_e982 {\n  transition: none;\n\n  color: var(--ring-main-color);\n}}\n\n@-webkit-keyframes progress_ed8f {\n  from {\n    transform: translateX(-64px);\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@keyframes progress_ed8f {\n  from {\n    transform: translateX(-64px);\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@-webkit-keyframes text-loading_d1b4 {\n  50% {\n    opacity: 0.5;\n  }\n}\n\n@keyframes text-loading_d1b4 {\n  50% {\n    opacity: 0.5;\n  }\n}\n',"",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/button/button.css","<no 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"../global/variables.css";\n\n@value unit from "../global/global.css";\n@value button-shadow: inset 0 0 0 1px;\n@value height: calc(unit * 3);\n@value loaderWidth: calc(unit * 8);\n\n:root {\n  /* TODO: This colors are not ready to move to variables.css */\n  /* stylelint-disable color-no-hex */\n  --ring-button-primary-background-color: #1a98ff;\n  --ring-button-primary-border-color: #0062b2;\n  --ring-button-danger-active-color: #ffe7e8;\n  --ring-button-danger-hover-color: var(--ring-icon-error-color);\n  --ring-button-loader-background: #33a3ff;\n  --ring-button-dark-icon-color: #80929d;\n  --ring-button-dark-border-disabled-color: #333;\n  --ring-button-dark-icon-disabled-color: var(--ring-dark-disabled-color);\n  --ring-button-dark-danger-active-color: #26080a;\n  --ring-button-dark-danger-hover-color: var(--ring-error-color);\n  --ring-button-dark-active-color: #062640;\n  --ring-button-dark-loader-background: #002039;\n  /* stylelint-enable color-no-hex */\n}\n\n.light {\n  color: var(--ring-text-color);\n  background-color: var(--ring-content-background-color);\n  box-shadow: button-shadow var(--ring-borders-color);\n\n  &:hover {\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &:active,\n  &.active {\n    background-color: var(--ring-selected-background-color);\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-border-hover-color), 0 0 0 1px var(--ring-border-hover-color);\n  }\n\n  &[disabled] {\n    box-shadow: button-shadow var(--ring-border-disabled-color);\n  }\n\n  &[disabled],\n  &[disabled].withIcon {\n    color: var(--ring-disabled-color);\n  }\n\n  &[disabled] .icon {\n    color: var(--ring-icon-disabled-color);\n  }\n\n  &.primary:active,\n  &.primary.active {\n    background-color: var(--ring-button-primary-background-color);\n    box-shadow: button-shadow var(--ring-button-primary-border-color);\n  }\n\n  &.danger:active,\n  &.danger.active {\n    background-color: var(--ring-button-danger-active-color);\n  }\n\n  &.danger:active,\n  &.danger.active,\n  &.danger:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-button-danger-hover-color);\n  }\n\n  &.withIcon {\n    color: var(--ring-secondary-color);\n  }\n\n  & .loaderBackground::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-content-background-color),\n        var(--ring-selected-background-color) 40%,\n        var(--ring-content-background-color) 80%\n      );\n  }\n}\n\n.light.danger:hover {\n  box-shadow: button-shadow var(--ring-button-danger-hover-color);\n}\n\n.dark {\n  color: var(--ring-dark-secondary-color);\n  background-color: var(--ring-navigation-background-color);\n  box-shadow: button-shadow var(--ring-dark-borders-color);\n\n  &:hover {\n    box-shadow: button-shadow var(--ring-dark-border-hover-color);\n  }\n\n  &:active,\n  &.active {\n    color: var(--ring-dark-text-color);\n    background-color: var(--ring-button-dark-active-color);\n    box-shadow: button-shadow var(--ring-dark-border-hover-color);\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-dark-border-hover-color), 0 0 0 1px var(--ring-dark-border-hover-color);\n  }\n\n  &[disabled] {\n    box-shadow: button-shadow var(--ring-button-dark-border-disabled-color);\n  }\n\n  &[disabled],\n  &[disabled].withIcon {\n    color: var(--ring-dark-disabled-color);\n  }\n\n  &[disabled] .icon {\n    color: var(--ring-button-dark-icon-disabled-color);\n  }\n\n  &.primary:active,\n  &.primary.active {\n    background-color: var(--ring-main-hover-color);\n    box-shadow: button-shadow var(--ring-border-hover-color);\n  }\n\n  &.danger:active,\n  &.danger.active {\n    color: var(--ring-icon-error-color);\n    background-color: var(--ring-button-dark-danger-active-color);\n  }\n\n  &.danger:active,\n  &.danger.active,\n  &.danger:global(.focus-visible) {\n    box-shadow: button-shadow var(--ring-button-dark-danger-hover-color);\n  }\n\n  &.withIcon {\n    color: var(--ring-dark-secondary-color);\n  }\n\n  & .loaderBackground::before {\n    background-image:\n      linear-gradient(\n        to right,\n        var(--ring-navigation-background-color),\n        var(--ring-button-dark-loader-background) 40%,\n        var(--ring-navigation-background-color) 80%\n      );\n  }\n\n  & .dropdownIcon {\n    color: var(--ring-dark-secondary-color);\n  }\n}\n\n.dark.danger:hover {\n  box-shadow: button-shadow var(--ring-button-dark-danger-hover-color);\n}\n\n.button {\n  composes: button from "../button-group/button-group.css";\n  composes: button from "../button-set/button-set.css";\n  composes: button from "../button-toolbar/button-toolbar.css";\n\n  position: relative;\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  height: height;\n  margin: 0;\n  padding: 0 calc(unit * 2);\n\n  cursor: pointer;\n  transition: color var(--ring-ease), background-color var(--ring-ease), box-shadow var(--ring-ease);\n  text-decoration: none;\n\n  border: 0;\n  border-radius: var(--ring-border-radius);\n  outline: 0;\n\n  font-family: var(--ring-font-family);\n  font-size: var(--ring-font-size-smaller);\n\n  line-height: height;\n\n  &:hover {\n    transition: none;\n  }\n\n  &:global(.focus-visible) {\n    transition: none;\n  }\n\n  &[disabled] {\n    pointer-events: none;\n  }\n\n  &::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n    outline: 0;\n  }\n}\n\n.active {\n  composes: active from "../button-group/button-group.css";\n}\n\n.primary {\n  color: var(--ring-dark-text-color);\n  background-color: var(--ring-main-color);\n  box-shadow: none;\n\n  &.withIcon,\n  &.withIcon:active,\n  &.withIcon.active {\n    color: var(--ring-main-color);\n  }\n\n  &:global(.focus-visible) {\n    transition: none;\n\n    background-color: var(--ring-main-hover-color);\n    box-shadow: none;\n  }\n\n  &[disabled] {\n    background-color: var(--ring-content-background-color);\n    box-shadow: button-shadow var(--ring-borders-color);\n  }\n\n  &[disabled].loader {\n    color: var(--ring-dark-text-color);\n  }\n\n  & .loaderBackground {\n    top: 0;\n    right: 0;\n    bottom: 0;\n    left: 0;\n\n    border-radius: var(--ring-border-radius);\n\n    &::before {\n      background-image:\n        linear-gradient(\n          to right,\n          var(--ring-main-color),\n          var(--ring-button-loader-background) 40%,\n          var(--ring-main-color) 80%\n        );\n    }\n  }\n}\n\n.primary:hover {\n  transition: none;\n\n  background-color: var(--ring-main-hover-color);\n  box-shadow: none;\n}\n\n.danger {\n  &,\n  &.withIcon,\n  &.withIcon:active,\n  &.withIcon.active,\n  &.text,\n  &.text:active,\n  &.text.active {\n    color: var(--ring-error-color);\n  }\n\n  &:global(.focus-visible),\n  &:hover {\n    transition: none;\n  }\n}\n\n.dark.danger {\n  &,\n  &:active,\n  &.active {\n    color: var(--ring-icon-error-color);\n  }\n}\n\n.text.text,\n.withIcon.withIcon {\n  background-color: transparent;\n  box-shadow: none;\n\n  &:hover {\n    transition: none;\n  }\n\n  &:active,\n  &.active {\n    background-color: transparent;\n    box-shadow: none;\n  }\n\n  &:global(.focus-visible) {\n    box-shadow: inset 0 0 0 2px var(--ring-border-hover-color);\n  }\n}\n\n.loader.text > .content {\n  animation-name: text-loading;\n  animation-duration: 1200ms;\n  animation-iteration-count: infinite;\n}\n\n.text.text:hover {\n  background-color: transparent;\n  box-shadow: none;\n}\n\n.withIcon:hover:not(:global(.focus-visible)) {\n  background-color: transparent;\n  box-shadow: none;\n}\n\n.text {\n  color: var(--ring-main-color);\n}\n\n.inline {\n  display: inline-block;\n\n  margin: 0;\n  padding: 0;\n\n  font-size: var(--ring-font-size);\n}\n\n.withIcon {\n  padding: 0 unit;\n}\n\n.text {\n  &:active,\n  &.active {\n    color: var(--ring-link-hover-color);\n  }\n}\n\n.withIcon {\n  &:active,\n  &.active {\n    color: var(--ring-main-color);\n  }\n}\n\n.withIcon:hover {\n  color: var(--ring-link-hover-color);\n}\n\n.text:hover {\n  color: var(--ring-link-hover-color);\n}\n\n.icon {\n  color: inherit;\n\n  line-height: normal;\n\n  &:not(:last-child) {\n    margin-right: calc(unit * 0.5);\n  }\n}\n\n.withNormalIconLight .icon {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-color);\n}\n\n.withNormalIconDark .icon {\n  transition: color var(--ring-ease);\n\n  color: var(--ring-button-dark-icon-color);\n}\n\n.withNormalIconLight:active,\n.withNormalIconLight.active,\n.withNormalIconDark:active,\n.withNormalIconDark.active {\n  color: var(--ring-main-color);\n\n  & .icon {\n    transition: none;\n\n    color: inherit;\n  }\n}\n\n.withNormalIconLight:hover .icon,\n.withNormalIconDark:hover .icon,\n.withDangerIconLight:hover .icon,\n.withDangerIconDark:hover .icon {\n  transition: none;\n\n  color: inherit;\n}\n\n.withDangerIconLight .icon,\n.withDangerIconLight:active .icon {\n  color: var(--ring-icon-error-color);\n}\n\n.withDangerIconDark .icon,\n.withDangerIconDark:active .icon {\n  color: var(--ring-error-color);\n}\n\n.loader {\n  position: relative;\n  z-index: 0;\n\n  pointer-events: none;\n\n  background-color: transparent;\n}\n\n.loaderBackground {\n  position: absolute;\n  z-index: -1;\n  top: 1px;\n  right: 1px;\n  bottom: 1px;\n  left: 1px;\n\n  overflow: hidden;\n\n  border-radius: var(--ring-border-radius-small);\n\n  &::before {\n    display: block;\n\n    width: calc(100% + loaderWidth);\n    height: 100%;\n\n    content: "";\n    animation: progress 1s linear infinite;\n\n    background-repeat: repeat;\n    background-size: loaderWidth;\n  }\n}\n\n.delayed .content::after {\n  content: "…";\n}\n\n.short {\n  width: calc(unit * 4);\n  padding: 0;\n}\n\n.dropdownIcon {\n  margin-right: -2px;\n\n  margin-left: 2px;\n\n  transition: color var(--ring-ease);\n\n  color: var(--ring-icon-secondary-color);\n\n  line-height: normal;\n}\n\n.button:hover .dropdownIcon {\n  transition: none;\n\n  color: var(--ring-main-color);\n}\n\n@keyframes progress {\n  from {\n    transform: translateX(calc(0 - loaderWidth));\n  }\n\n  to {\n    transform: translateX(0);\n  }\n}\n\n@keyframes text-loading {\n  50% {\n    opacity: 0.5;\n  }\n}\n',null],sourceRoot:""}]),p.locals={unit:""+l.default.locals.unit,"button-shadow":"inset 0 0 0 1px",height:"24px",loaderWidth:"64px",light:"light_b3b0",active:"active_bbe6 "+c.Z.locals.active,withIcon:"withIcon_ef77",icon:"icon_e878",primary:"primary_ddae",danger:"danger_bcea",loaderBackground:"loaderBackground_d9f5",dark:"dark_e616",dropdownIcon:"dropdownIcon_e982",button:"button_aba4 "+c.Z.locals.button+" "+u.Z.locals.button+" 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transparent;\n  }\n\n.input_f220::placeholder {\n    color: transparent;\n  }\n\n.input_f220[disabled] {\n    color: var(--ring-disabled-color);\n\n    -webkit-text-fill-color: var(--ring-disabled-color); /* Required for Safari, see RG-2063 for details */\n  }\n\n.input_f220 {\n\n  /*\n    Kill yellow/blue webkit autocomplete\n    https://css-tricks.com/snippets/css/change-autocomplete-styles-webkit-browsers/\n  */\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.input_f220:-webkit-autofill:hover {\n      -webkit-transition: background-color 50000s ease-in-out 0s;\n      transition: background-color 50000s ease-in-out 0s;\n    }}\n\n.input_f220:-webkit-autofill,\n    .input_f220:-webkit-autofill:focus {\n      -webkit-transition: background-color 50000s ease-in-out 0s;\n      transition: background-color 50000s ease-in-out 0s;\n    }\n\n.input_f220 {\n\n  /* if you need a cross, pass onClear prop */\n}\n\n.input_f220::-ms-clear {\n    display: none;\n  }\n\n.withIcon_f066 .input_f220,\n.withIcon_f066 .label_db4f {\n  padding-left: 22px\n}\n\n[dir=rtl] :is(.withIcon_f066 .input_f220,.withIcon_f066 .label_db4f) {\n    padding-right: 22px;\n    padding-left: 0\n}\n\n.icon_e49c,\n\n.clear_ffc3.clear_ffc3 {\n  position: absolute;\n  top: 17px;\n\n  line-height: 32px\n}\n\n.compact_ac08 :is(.icon_e49c,.clear_ffc3.clear_ffc3) {\n    top: 1px\n}\n\n.icon_e49c {\n  left: 0;\n\n  color: var(--ring-icon-color)\n}\n\n[dir=rtl] .icon_e49c {\n    right: 0;\n    left: auto\n}\n\n.clear_ffc3 {\n  right: 0;\n\n  padding-right: 0\n}\n\n.empty_cc0d .clear_ffc3 {\n    display: none\n}\n\n[dir=rtl] .clear_ffc3 {\n    right: auto;\n    left: 0\n}\n\ntextarea.input_f220 {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  padding-top: 8px;\n\n  resize: none;\n}\n\n.label_db4f {\n  position: absolute;\n  top: 23px;\n  left: 0;\n\n  transition: transform var(--ring-fast-ease), color var(--ring-fast-ease);\n  transform-origin: top left;\n  pointer-events: none\n}\n\n.light_d369 .label_db4f {\n    color: var(--ring-secondary-color)\n}\n\n.dark_a1d3 .label_db4f {\n    color: var(--ring-dark-secondary-color)\n}\n\n.input_f220:focus ~ .label_db4f,\n.container_ee33.active_f5cf > .label_db4f,\n.container_ee33:not(.empty_cc0d) > .label_db4f {\n  transform: translateY(-20px) scale(0.92308);\n}\n\n.noLabel_e16e ::-moz-placeholder, .input_f220:focus::-moz-placeholder {\n  -moz-transition: color var(--ring-fast-ease);\n  transition: color var(--ring-fast-ease);\n}\n\n.noLabel_e16e :-ms-input-placeholder, .input_f220:focus:-ms-input-placeholder {\n  -ms-transition: color var(--ring-fast-ease);\n  transition: color var(--ring-fast-ease);\n}\n\n.noLabel_e16e ::placeholder,\n.input_f220:focus::placeholder {\n  transition: color var(--ring-fast-ease);\n}\n\n.light_d369.noLabel_e16e ::-moz-placeholder, .light_d369 :focus::-moz-placeholder {\n  color: 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color: var(--ring-error-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.sizeS_c560 {\n  width: 96px;\n}\n\n.sizeM_aee6 {\n  width: 240px;\n}\n\n.sizeL_b0ca {\n  width: 400px;\n}\n\n.sizeFULL_f4f9 {\n  width: 100%;\n}\n","",{version:3,sources:["webpack://./node_modules/@jetbrains/ring-ui/components/input/input.css","<no 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"../global/variables.css";\n\n@value unit from "../global/global.css";\n@value iconOffset: calc(unit * 3 - 2px);\n\n.container {\n  composes: font-lower from  "../global/global.css";\n\n  position: relative;\n\n  box-sizing: border-box;\n  min-height: calc(unit * 8);\n  padding-top: calc(unit * 2);\n\n  & * {\n    box-sizing: border-box;\n  }\n}\n\n.compact {\n  min-height: calc(unit * 4);\n  padding: 0;\n}\n\n.input {\n  width: 100%;\n  min-height: calc(unit * 4);\n  padding: 0;\n\n  border: none;\n  outline: none;\n  background: transparent;\n\n  font: inherit;\n  caret-color: var(--ring-main-color);\n\n  @nest .clearable & {\n    padding-right: calc(unit * 3);\n\n    @nest [dir=rtl] & {\n      padding-right: 0;\n      padding-left: calc(unit * 3);\n    }\n  }\n\n  @nest .light & {\n    color: var(--ring-text-color);\n  }\n\n  @nest .dark & {\n    color: var(--ring-dark-text-color);\n  }\n\n  &::placeholder {\n    color: transparent;\n  }\n\n  &[disabled] {\n    color: var(--ring-disabled-color);\n\n    -webkit-text-fill-color: var(--ring-disabled-color); /* Required for Safari, see RG-2063 for details */\n  }\n\n  /*\n    Kill yellow/blue webkit autocomplete\n    https://css-tricks.com/snippets/css/change-autocomplete-styles-webkit-browsers/\n  */\n  &:-webkit-autofill {\n    &,\n    &:hover,\n    &:focus {\n      transition: background-color 50000s ease-in-out 0s;\n    }\n  }\n\n  /* if you need a cross, pass onClear prop */\n  &::-ms-clear {\n    display: none;\n  }\n}\n\n.withIcon .input,\n.withIcon .label {\n  padding-left: iconOffset;\n\n  @nest [dir=rtl] & {\n    padding-right: iconOffset;\n    padding-left: 0;\n  }\n}\n\n.icon,\n/* override Button */\n.clear.clear {\n  position: absolute;\n  top: 17px;\n\n  line-height: calc(unit * 4);\n\n  @nest .compact & {\n    top: 1px;\n  }\n}\n\n.icon {\n  left: 0;\n\n  color: var(--ring-icon-color);\n\n  @nest [dir=rtl] & {\n    right: 0;\n    left: auto;\n  }\n}\n\n.clear {\n  right: 0;\n\n  padding-right: 0;\n\n  @nest .empty & {\n    display: none;\n  }\n\n  @nest [dir=rtl] & {\n    right: auto;\n    left: 0;\n  }\n}\n\ntextarea.input {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  padding-top: unit;\n\n  resize: none;\n}\n\n.label {\n  position: absolute;\n  top: calc(unit * 3 - 1px);\n  left: 0;\n\n  transition: transform var(--ring-fast-ease), color var(--ring-fast-ease);\n  transform-origin: top left;\n  pointer-events: none;\n\n  @nest .light & {\n    color: var(--ring-secondary-color);\n  }\n\n  @nest .dark & {\n    color: var(--ring-dark-secondary-color);\n  }\n}\n\n.input:focus ~ .label,\n.container.active > .label,\n.container:not(.empty) > .label {\n  transform: translateY(calc(unit * -2.5)) scale(calc(12 / 13));\n}\n\n.noLabel ::placeholder,\n.input:focus::placeholder {\n  transition: color var(--ring-fast-ease);\n}\n\n.light.noLabel ::placeholder,\n.light :focus::placeholder {\n  color: var(--ring-disabled-color);\n}\n\n/* stylelint-disable-next-line selector-max-specificity */\n.dark.noLabel ::placeholder,\n/* stylelint-disable-next-line selector-max-specificity */\n.dark :focus::placeholder {\n  color: var(--ring-secondary-color);\n}\n\n.input:focus ~ .label {\n  color: var(--ring-main-color);\n}\n\n.error > :focus ~ .label {\n  color: var(--ring-error-color);\n}\n\n.underline {\n  height: 1px;\n\n  border-bottom-width: 1px;\n  border-bottom-style: solid;\n\n  @nest .light & {\n    border-color: var(--ring-borders-color);\n  }\n\n  @nest .dark & {\n    border-color: var(--ring-dark-borders-color);\n  }\n}\n\n.input[disabled] ~ .underline {\n  border-bottom-style: dashed;\n}\n\n.focusUnderline,\n.errorUnderline {\n  width: 100%;\n  height: 2px;\n\n  transform: scaleX(0);\n  transform-origin: top left;\n}\n\n.focusUnderline {\n  margin-top: -1px;\n\n  background: var(--ring-main-color);\n}\n\n.errorUnderline {\n  margin-top: -2px;\n\n  background: var(--ring-icon-error-color);\n\n  @nest .dark & {\n    background: var(--ring-error-color);\n  }\n}\n\n.input:focus ~ .focusUnderline,\n.container.active > .focusUnderline,\n.error > .errorUnderline {\n  transition: transform 0.15s ease-out;\n  transform: scaleX(1);\n}\n\n.errorText {\n  overflow: hidden;\n\n  box-sizing: border-box;\n  height: 0;\n  padding: calc(unit / 2) 0 unit;\n\n  transition: height 0.3s ease-out;\n\n  color: var(--ring-error-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.sizeS {\n  width: calc(unit * 12);\n}\n\n.sizeM {\n  width: calc(unit * 30);\n}\n\n.sizeL {\n  width: calc(unit * 50);\n}\n\n.sizeFULL {\n  width: 100%;\n}\n',null],sourceRoot:""}]),u.locals={unit:""+l.default.locals.unit,iconOffset:"22px",container:"container_ee33 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{.link_e6e5:hover {\n    text-decoration: none;\n  }}\n\n.link_e6e5 { /* To override link stiles inside alert */\n\n  cursor: pointer;\n  transition: color var(--ring-fast-ease);\n\n  color: var(--ring-link-color)\n}\n\n.link_e6e5 {\n    text-decoration: none;\n  }\n\n.link_e6e5.hover_bed7 {\n    transition: none;\n\n    color: var(--ring-link-hover-color);\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5:hover .inner_e3ba {\n    border-width: 0;\n    border-bottom: 2px solid;\n    border-image-source: linear-gradient(currentcolor 50%, transparent 50%);\n    border-image-slice: 0 0 100% 0;\n  }}\n\n.link_e6e5.active_f804 {\n    color: inherit;\n  }\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5.compatibilityUnderlineMode_e7a0:hover {\n    text-decoration: underline\n\n    /* stylelint-disable-next-line selector-max-specificity */\n  }\n    .link_e6e5.compatibilityUnderlineMode_e7a0:hover .inner_e3ba {\n      border: none;\n    }}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5.pseudo_d9ae:hover {\n    text-decoration: none\n\n    /* stylelint-disable-next-line selector-max-specificity */\n  }\n    .link_e6e5.pseudo_d9ae:hover .inner_e3ba {\n      border: none;\n    }}\n\n.link_e6e5 {\n\n  outline: none;\n  }\n\n.link_e6e5.focus-visible {\n    box-shadow: 0 0 0 2px var(--ring-border-hover-color);\n  }\n\n@media (-webkit-min-device-pixel-ratio: 2), (min-resolution: 2dppx) {@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.link_e6e5:hover .inner_e3ba {\n    border-bottom-width: 1px;\n  }}\n}\n\n.text_e98a {\n  border-radius: var(--ring-border-radius);\n}\n\n@media (hover: hover), (-moz-touch-enabled: 0), (-ms-high-contrast: none), (-ms-high-contrast: active) {.inherit_d267:not(:hover) {\n  color: inherit;\n}}\n\n.pseudo_d9ae {\n  margin: 0;\n  padding: 0;\n\n  text-align: left;\n\n  border: 0;\n\n  background: transparent;\n\n  font: inherit\n}\n\n.pseudo_d9ae::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n  }\n","",{version:3,sources:["<no 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var(--ring-fast-ease);\n\n  color: var(--ring-link-color);\n\n  &,\n  &:hover {\n    text-decoration: none;\n  }\n\n  &:hover,\n  &.hover {\n    transition: none;\n\n    color: var(--ring-link-hover-color);\n  }\n\n  &:hover .inner {\n    border-width: 0;\n    border-bottom: 2px solid;\n    border-image-source: linear-gradient(currentcolor 50%, transparent 50%);\n    border-image-slice: 0 0 100% 0;\n  }\n\n  &.active {\n    color: inherit;\n  }\n\n  &.compatibilityUnderlineMode:hover {\n    text-decoration: underline;\n\n    /* stylelint-disable-next-line selector-max-specificity */\n    & .inner {\n      border: none;\n    }\n  }\n\n  &.pseudo:hover {\n    text-decoration: none;\n\n    /* stylelint-disable-next-line selector-max-specificity */\n    & .inner {\n      border: none;\n    }\n  }\n\n  outline: none;\n\n  &:global(.focus-visible) {\n    box-shadow: 0 0 0 2px var(--ring-border-hover-color);\n  }\n}\n\n@media (min-resolution: 2dppx) {\n  .link:hover .inner {\n    border-bottom-width: 1px;\n  }\n}\n\n.text {\n  border-radius: var(--ring-border-radius);\n}\n\n.inherit:not(:hover) {\n  color: inherit;\n}\n\n.pseudo {\n  margin: 0;\n  padding: 0;\n\n  text-align: left;\n\n  border: 0;\n\n  background: transparent;\n\n  font: inherit;\n\n  &::-moz-focus-inner {\n    padding: 0;\n\n    border: 0;\n  }\n}\n'],sourceRoot:""}]),u.locals={link:"link_e6e5 "+l.Z.locals.link,hover:"hover_bed7",inner:"inner_e3ba",active:"active_f804",compatibilityUnderlineMode:"compatibilityUnderlineMode_e7a0",pseudo:"pseudo_d9ae",text:"text_e98a",inherit:"inherit_d267"};const s=u},5578:(e,n,t)=>{"use strict";t.r(n),t.d(n,{default:()=>s});var r=t(7537),o=t.n(r),i=t(3645),a=t.n(i),l=t(8004),c=t(3181),u=a()(o());u.i(c.Z),u.i(l.default,"",!0),u.push([e.id,".list_a01c {\n  position: relative;\n\n  z-index: 1;\n\n  border-radius: var(--ring-border-radius);\n\n  line-height: normal;\n}\n\n.simpleInner_a4f8 {\n  overflow: auto;\n}\n\n.scrolling_a910 {\n  pointer-events: 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contain;\n}\n\n.highlight_e4dd {\n  color: var(--ring-link-hover-color);\n}\n\n.service_a4fc {\n  color: var(--ring-secondary-color);\n}\n\n.glyph_dfd5 {\n  float: left;\n\n  width: 20px;\n  margin-right: 8px;\n\n  color: var(--ring-icon-secondary-color);\n}\n\n.avatar_f258 {\n\n  top: 0;\n}\n\n.rightGlyph_fb77 {\n\n  float: right;\n\n  margin-right: 0;\n  margin-left: 16px;\n}\n\n.checkboxContainer_c949 {\n  position: absolute;\n  top: 7px;\n  left: 19px;\n\n  width: 20px;\n  height: 20px;\n  margin-right: 8px;\n}\n\n.compact_efa8 .checkboxContainer_c949 {\n  top: 0;\n\n  width: 16px;\n  height: 16px;\n}\n\n.title_e1bf {\n  display: block;\n\n  margin-top: 10px;\n  margin-bottom: 6px;\n  padding: 8px 16px 0;\n\n  text-align: left\n}\n\n[dir=rtl] .title_e1bf {\n    text-align: right;\n    direction: ltr\n}\n\n.title_first_ac55 {\n  margin-top: 0;\n}\n\n.text_fe0e {\n  letter-spacing: 1.5px;\n  text-transform: uppercase;\n\n  color: var(--ring-secondary-color);\n\n  font-size: 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font-weight: 400;\n  line-height: var(--ring-line-height-lowest);\n}\n\n.right {\n  display: flex;\n  align-items: center;\n  align-self: center;\n  flex-direction: row;\n  flex-shrink: 0;\n}\n\n.details {\n  margin-bottom: 6px;\n\n  white-space: normal;\n\n  color: var(--ring-secondary-color);\n\n  font-size: var(--ring-font-size-smaller);\n  line-height: var(--ring-line-height-lowest);\n}\n\n.padded {\n  margin-left: 20px;\n}\n\n/* Override :last-child */\n.hint.hint {\n  margin-bottom: 0;\n\n  border-top: 1px solid var(--ring-line-color);\n  background-color: var(--ring-sidebar-background-color);\n\n  font-size: var(--ring-font-size-smaller);\n}\n\n.action {\n  cursor: pointer;\n\n  color: var(--ring-text-color);\n}\n\n/* override link */\n.actionLink.actionLink {\n  transition: none;\n}\n\n.hover:not(.error) {\n  background-color: var(--ring-selected-background-color);\n}\n\n.icon {\n  display: inline-block;\n\n  width: 20px;\n  height: 20px;\n  margin-left: calc(unit * 2);\n\n  background-repeat: no-repeat;\n  background-position: center;\n\n  background-size: contain;\n}\n\n.highlight {\n  color: var(--ring-link-hover-color);\n}\n\n.service {\n  color: var(--ring-secondary-color);\n}\n\n.glyph {\n  float: left;\n\n  width: 20px;\n  margin-right: unit;\n\n  color: var(--ring-icon-secondary-color);\n}\n\n.avatar {\n  composes: glyph;\n\n  top: 0;\n}\n\n.rightGlyph {\n  composes: glyph;\n\n  float: right;\n\n  margin-right: 0;\n  margin-left: calc(unit * 2);\n}\n\n.checkboxContainer {\n  position: absolute;\n  top: 7px;\n  left: 19px;\n\n  width: 20px;\n  height: 20px;\n  margin-right: unit;\n}\n\n.compact .checkboxContainer {\n  top: 0;\n\n  width: calc(unit * 2);\n  height: calc(unit * 2);\n}\n\n.title {\n  display: block;\n\n  margin-top: 10px;\n  margin-bottom: 6px;\n  padding: listSpacing calc(unit * 2) 0;\n\n  text-align: left;\n\n  @nest [dir=rtl] & {\n    text-align: right;\n    direction: ltr;\n  }\n}\n\n.title_first {\n  margin-top: 0;\n}\n\n.text {\n  letter-spacing: 1.5px;\n  text-transform: uppercase;\n\n  color: var(--ring-secondary-color);\n\n  font-size: var(--ring-font-size-smaller);\n}\n\n.fade {\n  position: absolute;\n  bottom: 0;\n\n  width: 100%;\n  height: calc(unit * 3);\n\n  pointer-events: none;\n\n  background: linear-gradient(to bottom, rgba(255, 255, 255, 0), var(--ring-content-background-color));\n}\n\n.disabled {\n  pointer-events: none;\n\n  color: 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}\n}\n\n.selectedIcon {\n  composes: resetButton;\n\n  display: inline-block;\n\n  width: calc(2 * unit);\n  height: calc(2 * unit);\n  margin: 0 4px;\n\n  background-repeat: no-repeat;\n  background-position: center;\n\n  background-size: contain;\n}\n\n.clearIcon {\n  padding: 0 3px;\n\n  vertical-align: -1px;\n}\n\n.clearIcon.clearIcon > span > span {\n  color: var(--ring-icon-secondary-color);\n}\n\n.sizeS {\n  width: calc(unit * 12);\n}\n\n.sizeM {\n  width: calc(unit * 30);\n}\n\n.sizeL {\n  width: calc(unit * 50);\n}\n\n.sizeFULL {\n  width: 100%;\n}\n\n.sizeAUTO {\n  max-width: 100%;\n}\n\n.buttonMode,\n.materialMode {\n  position: relative;\n\n  cursor: pointer;\n}\n\n.value {\n  composes: ellipsis from "../global/global.css";\n  composes: font from "../global/global.css";\n\n  display: inline-block;\n\n  box-sizing: border-box;\n  width: 100%;\n  height: calc(unit * 4 + 1px);\n  padding: 0 0 3px;\n\n  cursor: pointer;\n  transition: color var(--ring-ease), border-color 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+/** @license React v17.0.2
+ * react.production.min.js
+ *
+ * Copyright (c) Facebook, Inc. and its affiliates.
+ *
+ * This source code is licensed under the MIT license found in the
+ * LICENSE file in the root directory of this source tree.
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t=n.maxScrollSize,r=void 0===t?C():t,o=E(n,["maxScrollSize"]);c(this,e),A(this,"_cellSizeAndPositionManager",void 0),A(this,"_maxScrollSize",void 0),this._cellSizeAndPositionManager=new _(o),this._maxScrollSize=r}return s(e,[{key:"areOffsetsAdjusted",value:function(){return this._cellSizeAndPositionManager.getTotalSize()>this._maxScrollSize}},{key:"configure",value:function(e){this._cellSizeAndPositionManager.configure(e)}},{key:"getCellCount",value:function(){return this._cellSizeAndPositionManager.getCellCount()}},{key:"getEstimatedCellSize",value:function(){return this._cellSizeAndPositionManager.getEstimatedCellSize()}},{key:"getLastMeasuredIndex",value:function(){return this._cellSizeAndPositionManager.getLastMeasuredIndex()}},{key:"getOffsetAdjustment",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize(),i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:o});return Math.round(i*(o-r))}},{key:"getSizeAndPositionOfCell",value:function(e){return this._cellSizeAndPositionManager.getSizeAndPositionOfCell(e)}},{key:"getSizeAndPositionOfLastMeasuredCell",value:function(){return this._cellSizeAndPositionManager.getSizeAndPositionOfLastMeasuredCell()}},{key:"getTotalSize",value:function(){return Math.min(this._maxScrollSize,this._cellSizeAndPositionManager.getTotalSize())}},{key:"getUpdatedOffsetForIndex",value:function(e){var n=e.align,t=void 0===n?"auto":n,r=e.containerSize,o=e.currentOffset,i=e.targetIndex;o=this._safeOffsetToOffset({containerSize:r,offset:o});var a=this._cellSizeAndPositionManager.getUpdatedOffsetForIndex({align:t,containerSize:r,currentOffset:o,targetIndex:i});return this._offsetToSafeOffset({containerSize:r,offset:a})}},{key:"getVisibleCellRange",value:function(e){var n=e.containerSize,t=e.offset;return t=this._safeOffsetToOffset({containerSize:n,offset:t}),this._cellSizeAndPositionManager.getVisibleCellRange({containerSize:n,offset:t})}},{key:"resetCell",value:function(e){this._cellSizeAndPositionManager.resetCell(e)}},{key:"_getOffsetPercentage",value:function(e){var n=e.containerSize,t=e.offset,r=e.totalSize;return r<=n?0:t/(r-n)}},{key:"_offsetToSafeOffset",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize();if(r===o)return t;var i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:r});return Math.round(i*(o-n))}},{key:"_safeOffsetToOffset",value:function(e){var n=e.containerSize,t=e.offset,r=this._cellSizeAndPositionManager.getTotalSize(),o=this.getTotalSize();if(r===o)return t;var i=this._getOffsetPercentage({containerSize:n,offset:t,totalSize:o});return Math.round(i*(r-n))}}]),e}();function x(){var e=!(arguments.length>0&&void 0!==arguments[0])||arguments[0],n={};return function(t){var r=t.callback,o=t.indices,i=Object.keys(o),a=!e||i.every((function(e){var n=o[e];return Array.isArray(n)?n.length>0:n>=0})),l=i.length!==Object.keys(n).length||i.some((function(e){var t=n[e],r=o[e];return Array.isArray(r)?t.join(",")!==r.join(","):t!==r}));n=o,a&&l&&r(o)}}function k(e){var n=e.cellSize,t=e.cellSizeAndPositionManager,r=e.previousCellsCount,o=e.previousCellSize,i=e.previousScrollToAlignment,a=e.previousScrollToIndex,l=e.previousSize,c=e.scrollOffset,u=e.scrollToAlignment,s=e.scrollToIndex,f=e.size,p=e.sizeJustIncreasedFromZero,d=e.updateScrollIndexCallback,h=t.getCellCount(),g=s>=0&&s<h;g&&(f!==l||p||!o||"number"==typeof n&&n!==o||u!==i||s!==a)?d(s):!g&&h>0&&(f<l||h<r)&&c>t.getTotalSize()-f&&d(h-1)}const S=!("undefined"==typeof window||!window.document||!window.document.createElement);var O,B;function I(){var e=this.constructor.getDerivedStateFromProps(this.props,this.state);null!=e&&this.setState(e)}function T(e){this.setState(function(n){var t=this.constructor.getDerivedStateFromProps(e,n);return null!=t?t:null}.bind(this))}function P(e,n){try{var t=this.props,r=this.state;this.props=e,this.state=n,this.__reactInternalSnapshotFlag=!0,this.__reactInternalSnapshot=this.getSnapshotBeforeUpdate(t,r)}finally{this.props=t,this.state=r}}I.__suppressDeprecationWarning=!0,T.__suppressDeprecationWarning=!0,P.__suppressDeprecationWarning=!0;var j,z,R=(B="undefined"!=typeof window?window:"undefined"!=typeof self?self:{}).requestAnimationFrame||B.webkitRequestAnimationFrame||B.mozRequestAnimationFrame||B.oRequestAnimationFrame||B.msRequestAnimationFrame||function(e){return B.setTimeout(e,1e3/60)},M=B.cancelAnimationFrame||B.webkitCancelAnimationFrame||B.mozCancelAnimationFrame||B.oCancelAnimationFrame||B.msCancelAnimationFrame||function(e){B.clearTimeout(e)},D=R,N=M,L=function(e){return N(e.id)},F=function(e,n){var t;Promise.resolve().then((function(){t=Date.now()}));var r={id:D((function o(){Date.now()-t>=n?e.call():r.id=D(o)}))};return r};function U(e,n){var t=Object.keys(e);if(Object.getOwnPropertySymbols){var r=Object.getOwnPropertySymbols(e);n&&(r=r.filter((function(n){return Object.getOwnPropertyDescriptor(e,n).enumerable}))),t.push.apply(t,r)}return t}function W(e){for(var n=1;n<arguments.length;n++){var t=null!=arguments[n]?arguments[n]:{};n%2?U(t,!0).forEach((function(n){A(e,n,t[n])})):Object.getOwnPropertyDescriptors?Object.defineProperties(e,Object.getOwnPropertyDescriptors(t)):U(t).forEach((function(n){Object.defineProperty(e,n,Object.getOwnPropertyDescriptor(t,n))}))}return e}var H="observed",G="requested",q=(z=j=function(n){function t(e){var n;c(this,t),A(p(n=d(this,h(t).call(this,e))),"_onGridRenderedMemoizer",x()),A(p(n),"_onScrollMemoizer",x(!1)),A(p(n),"_deferredInvalidateColumnIndex",null),A(p(n),"_deferredInvalidateRowIndex",null),A(p(n),"_recomputeScrollLeftFlag",!1),A(p(n),"_recomputeScrollTopFlag",!1),A(p(n),"_horizontalScrollBarSize",0),A(p(n),"_verticalScrollBarSize",0),A(p(n),"_scrollbarPresenceChanged",!1),A(p(n),"_scrollingContainer",void 0),A(p(n),"_childrenToDisplay",void 0),A(p(n),"_columnStartIndex",void 0),A(p(n),"_columnStopIndex",void 0),A(p(n),"_rowStartIndex",void 0),A(p(n),"_rowStopIndex",void 0),A(p(n),"_renderedColumnStartIndex",0),A(p(n),"_renderedColumnStopIndex",0),A(p(n),"_renderedRowStartIndex",0),A(p(n),"_renderedRowStopIndex",0),A(p(n),"_initialScrollTop",void 0),A(p(n),"_initialScrollLeft",void 0),A(p(n),"_disablePointerEventsTimeoutId",void 0),A(p(n),"_styleCache",{}),A(p(n),"_cellCache",{}),A(p(n),"_debounceScrollEndedCallback",(function(){n._disablePointerEventsTimeoutId=null,n.setState({isScrolling:!1,needToResetStyleCache:!1})})),A(p(n),"_invokeOnGridRenderedHelper",(function(){var e=n.props.onSectionRendered;n._onGridRenderedMemoizer({callback:e,indices:{columnOverscanStartIndex:n._columnStartIndex,columnOverscanStopIndex:n._columnStopIndex,columnStartIndex:n._renderedColumnStartIndex,columnStopIndex:n._renderedColumnStopIndex,rowOverscanStartIndex:n._rowStartIndex,rowOverscanStopIndex:n._rowStopIndex,rowStartIndex:n._renderedRowStartIndex,rowStopIndex:n._renderedRowStopIndex}})})),A(p(n),"_setScrollingContainerRef",(function(e){n._scrollingContainer=e})),A(p(n),"_onScroll",(function(e){e.target===n._scrollingContainer&&n.handleScrollEvent(e.target)}));var r=new w({cellCount:e.columnCount,cellSizeGetter:function(n){return t._wrapSizeGetter(e.columnWidth)(n)},estimatedCellSize:t._getEstimatedColumnSize(e)}),o=new w({cellCount:e.rowCount,cellSizeGetter:function(n){return t._wrapSizeGetter(e.rowHeight)(n)},estimatedCellSize:t._getEstimatedRowSize(e)});return n.state={instanceProps:{columnSizeAndPositionManager:r,rowSizeAndPositionManager:o,prevColumnWidth:e.columnWidth,prevRowHeight:e.rowHeight,prevColumnCount:e.columnCount,prevRowCount:e.rowCount,prevIsScrolling:!0===e.isScrolling,prevScrollToColumn:e.scrollToColumn,prevScrollToRow:e.scrollToRow,scrollbarSize:0,scrollbarSizeMeasured:!1},isScrolling:!1,scrollDirectionHorizontal:1,scrollDirectionVertical:1,scrollLeft:0,scrollTop:0,scrollPositionChangeReason:null,needToResetStyleCache:!1},e.scrollToRow>0&&(n._initialScrollTop=n._getCalculatedScrollTop(e,n.state)),e.scrollToColumn>0&&(n._initialScrollLeft=n._getCalculatedScrollLeft(e,n.state)),n}return v(t,n),s(t,[{key:"getOffsetForCell",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:{},n=e.alignment,t=void 0===n?this.props.scrollToAlignment:n,r=e.columnIndex,o=void 0===r?this.props.scrollToColumn:r,i=e.rowIndex,a=void 0===i?this.props.scrollToRow:i,l=W({},this.props,{scrollToAlignment:t,scrollToColumn:o,scrollToRow:a});return{scrollLeft:this._getCalculatedScrollLeft(l),scrollTop:this._getCalculatedScrollTop(l)}}},{key:"getTotalRowsHeight",value:function(){return this.state.instanceProps.rowSizeAndPositionManager.getTotalSize()}},{key:"getTotalColumnsWidth",value:function(){return this.state.instanceProps.columnSizeAndPositionManager.getTotalSize()}},{key:"handleScrollEvent",value:function(e){var n=e.scrollLeft,t=void 0===n?0:n,r=e.scrollTop,o=void 0===r?0:r;if(!(o<0)){this._debounceScrollEnded();var i=this.props,a=i.autoHeight,l=i.autoWidth,c=i.height,u=i.width,s=this.state.instanceProps,f=s.scrollbarSize,p=s.rowSizeAndPositionManager.getTotalSize(),d=s.columnSizeAndPositionManager.getTotalSize(),h=Math.min(Math.max(0,d-u+f),t),g=Math.min(Math.max(0,p-c+f),o);if(this.state.scrollLeft!==h||this.state.scrollTop!==g){var v={isScrolling:!0,scrollDirectionHorizontal:h!==this.state.scrollLeft?h>this.state.scrollLeft?1:-1:this.state.scrollDirectionHorizontal,scrollDirectionVertical:g!==this.state.scrollTop?g>this.state.scrollTop?1:-1:this.state.scrollDirectionVertical,scrollPositionChangeReason:H};a||(v.scrollTop=g),l||(v.scrollLeft=h),v.needToResetStyleCache=!1,this.setState(v)}this._invokeOnScrollMemoizer({scrollLeft:h,scrollTop:g,totalColumnsWidth:d,totalRowsHeight:p})}}},{key:"invalidateCellSizeAfterRender",value:function(e){var n=e.columnIndex,t=e.rowIndex;this._deferredInvalidateColumnIndex="number"==typeof this._deferredInvalidateColumnIndex?Math.min(this._deferredInvalidateColumnIndex,n):n,this._deferredInvalidateRowIndex="number"==typeof this._deferredInvalidateRowIndex?Math.min(this._deferredInvalidateRowIndex,t):t}},{key:"measureAllCells",value:function(){var e=this.props,n=e.columnCount,t=e.rowCount,r=this.state.instanceProps;r.columnSizeAndPositionManager.getSizeAndPositionOfCell(n-1),r.rowSizeAndPositionManager.getSizeAndPositionOfCell(t-1)}},{key:"recomputeGridSize",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:{},n=e.columnIndex,t=void 0===n?0:n,r=e.rowIndex,o=void 0===r?0:r,i=this.props,a=i.scrollToColumn,l=i.scrollToRow,c=this.state.instanceProps;c.columnSizeAndPositionManager.resetCell(t),c.rowSizeAndPositionManager.resetCell(o),this._recomputeScrollLeftFlag=a>=0&&(1===this.state.scrollDirectionHorizontal?t<=a:t>=a),this._recomputeScrollTopFlag=l>=0&&(1===this.state.scrollDirectionVertical?o<=l:o>=l),this._styleCache={},this._cellCache={},this.forceUpdate()}},{key:"scrollToCell",value:function(e){var n=e.columnIndex,t=e.rowIndex,r=this.props.columnCount,o=this.props;r>1&&void 0!==n&&this._updateScrollLeftForScrollToColumn(W({},o,{scrollToColumn:n})),void 0!==t&&this._updateScrollTopForScrollToRow(W({},o,{scrollToRow:t}))}},{key:"componentDidMount",value:function(){var e=this.props,n=e.getScrollbarSize,r=e.height,o=e.scrollLeft,i=e.scrollToColumn,a=e.scrollTop,l=e.scrollToRow,c=e.width,u=this.state.instanceProps;if(this._initialScrollTop=0,this._initialScrollLeft=0,this._handleInvalidatedGridSize(),u.scrollbarSizeMeasured||this.setState((function(e){var t=W({},e,{needToResetStyleCache:!1});return t.instanceProps.scrollbarSize=n(),t.instanceProps.scrollbarSizeMeasured=!0,t})),"number"==typeof o&&o>=0||"number"==typeof a&&a>=0){var s=t._getScrollToPositionStateUpdate({prevState:this.state,scrollLeft:o,scrollTop:a});s&&(s.needToResetStyleCache=!1,this.setState(s))}this._scrollingContainer&&(this._scrollingContainer.scrollLeft!==this.state.scrollLeft&&(this._scrollingContainer.scrollLeft=this.state.scrollLeft),this._scrollingContainer.scrollTop!==this.state.scrollTop&&(this._scrollingContainer.scrollTop=this.state.scrollTop));var f=r>0&&c>0;i>=0&&f&&this._updateScrollLeftForScrollToColumn(),l>=0&&f&&this._updateScrollTopForScrollToRow(),this._invokeOnGridRenderedHelper(),this._invokeOnScrollMemoizer({scrollLeft:o||0,scrollTop:a||0,totalColumnsWidth:u.columnSizeAndPositionManager.getTotalSize(),totalRowsHeight:u.rowSizeAndPositionManager.getTotalSize()}),this._maybeCallOnScrollbarPresenceChange()}},{key:"componentDidUpdate",value:function(e,n){var t=this,r=this.props,o=r.autoHeight,i=r.autoWidth,a=r.columnCount,l=r.height,c=r.rowCount,u=r.scrollToAlignment,s=r.scrollToColumn,f=r.scrollToRow,p=r.width,d=this.state,h=d.scrollLeft,g=d.scrollPositionChangeReason,v=d.scrollTop,A=d.instanceProps;this._handleInvalidatedGridSize();var b=a>0&&0===e.columnCount||c>0&&0===e.rowCount;g===G&&(!i&&h>=0&&(h!==this._scrollingContainer.scrollLeft||b)&&(this._scrollingContainer.scrollLeft=h),!o&&v>=0&&(v!==this._scrollingContainer.scrollTop||b)&&(this._scrollingContainer.scrollTop=v));var m=(0===e.width||0===e.height)&&l>0&&p>0;if(this._recomputeScrollLeftFlag?(this._recomputeScrollLeftFlag=!1,this._updateScrollLeftForScrollToColumn(this.props)):k({cellSizeAndPositionManager:A.columnSizeAndPositionManager,previousCellsCount:e.columnCount,previousCellSize:e.columnWidth,previousScrollToAlignment:e.scrollToAlignment,previousScrollToIndex:e.scrollToColumn,previousSize:e.width,scrollOffset:h,scrollToAlignment:u,scrollToIndex:s,size:p,sizeJustIncreasedFromZero:m,updateScrollIndexCallback:function(){return t._updateScrollLeftForScrollToColumn(t.props)}}),this._recomputeScrollTopFlag?(this._recomputeScrollTopFlag=!1,this._updateScrollTopForScrollToRow(this.props)):k({cellSizeAndPositionManager:A.rowSizeAndPositionManager,previousCellsCount:e.rowCount,previousCellSize:e.rowHeight,previousScrollToAlignment:e.scrollToAlignment,previousScrollToIndex:e.scrollToRow,previousSize:e.height,scrollOffset:v,scrollToAlignment:u,scrollToIndex:f,size:l,sizeJustIncreasedFromZero:m,updateScrollIndexCallback:function(){return t._updateScrollTopForScrollToRow(t.props)}}),this._invokeOnGridRenderedHelper(),h!==n.scrollLeft||v!==n.scrollTop){var y=A.rowSizeAndPositionManager.getTotalSize(),E=A.columnSizeAndPositionManager.getTotalSize();this._invokeOnScrollMemoizer({scrollLeft:h,scrollTop:v,totalColumnsWidth:E,totalRowsHeight:y})}this._maybeCallOnScrollbarPresenceChange()}},{key:"componentWillUnmount",value:function(){this._disablePointerEventsTimeoutId&&L(this._disablePointerEventsTimeoutId)}},{key:"render",value:function(){var n=this.props,t=n.autoContainerWidth,r=n.autoHeight,o=n.autoWidth,i=n.className,a=n.containerProps,c=n.containerRole,u=n.containerStyle,s=n.height,f=n.id,p=n.noContentRenderer,d=n.role,h=n.style,g=n.tabIndex,v=n.width,A=this.state,b=A.instanceProps,y=A.needToResetStyleCache,E=this._isScrolling(),_={boxSizing:"border-box",direction:"ltr",height:r?"auto":s,position:"relative",width:o?"auto":v,WebkitOverflowScrolling:"touch",willChange:"transform"};y&&(this._styleCache={}),this.state.isScrolling||this._resetStyleCache(),this._calculateChildrenToRender(this.props,this.state);var C=b.columnSizeAndPositionManager.getTotalSize(),w=b.rowSizeAndPositionManager.getTotalSize(),x=w>s?b.scrollbarSize:0,k=C>v?b.scrollbarSize:0;k===this._horizontalScrollBarSize&&x===this._verticalScrollBarSize||(this._horizontalScrollBarSize=k,this._verticalScrollBarSize=x,this._scrollbarPresenceChanged=!0),_.overflowX=C+x<=v?"hidden":"auto",_.overflowY=w+k<=s?"hidden":"auto";var S=this._childrenToDisplay,O=0===S.length&&s>0&&v>0;return e.createElement("div",l({ref:this._setScrollingContainerRef},a,{"aria-label":this.props["aria-label"],"aria-readonly":this.props["aria-readonly"],className:m("ReactVirtualized__Grid",i),id:f,onScroll:this._onScroll,role:d,style:W({},_,{},h),tabIndex:g}),S.length>0&&e.createElement("div",{className:"ReactVirtualized__Grid__innerScrollContainer",role:c,style:W({width:t?"auto":C,height:w,maxWidth:C,maxHeight:w,overflow:"hidden",pointerEvents:E?"none":"",position:"relative"},u)},S),O&&p())}},{key:"_calculateChildrenToRender",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,t=e.cellRenderer,r=e.cellRangeRenderer,o=e.columnCount,i=e.deferredMeasurementCache,a=e.height,l=e.overscanColumnCount,c=e.overscanIndicesGetter,u=e.overscanRowCount,s=e.rowCount,f=e.width,p=e.isScrollingOptOut,d=n.scrollDirectionHorizontal,h=n.scrollDirectionVertical,g=n.instanceProps,v=this._initialScrollTop>0?this._initialScrollTop:n.scrollTop,A=this._initialScrollLeft>0?this._initialScrollLeft:n.scrollLeft,b=this._isScrolling(e,n);if(this._childrenToDisplay=[],a>0&&f>0){var m=g.columnSizeAndPositionManager.getVisibleCellRange({containerSize:f,offset:A}),y=g.rowSizeAndPositionManager.getVisibleCellRange({containerSize:a,offset:v}),E=g.columnSizeAndPositionManager.getOffsetAdjustment({containerSize:f,offset:A}),_=g.rowSizeAndPositionManager.getOffsetAdjustment({containerSize:a,offset:v});this._renderedColumnStartIndex=m.start,this._renderedColumnStopIndex=m.stop,this._renderedRowStartIndex=y.start,this._renderedRowStopIndex=y.stop;var C=c({direction:"horizontal",cellCount:o,overscanCellsCount:l,scrollDirection:d,startIndex:"number"==typeof m.start?m.start:0,stopIndex:"number"==typeof m.stop?m.stop:-1}),w=c({direction:"vertical",cellCount:s,overscanCellsCount:u,scrollDirection:h,startIndex:"number"==typeof y.start?y.start:0,stopIndex:"number"==typeof y.stop?y.stop:-1}),x=C.overscanStartIndex,k=C.overscanStopIndex,S=w.overscanStartIndex,O=w.overscanStopIndex;if(i){if(!i.hasFixedHeight())for(var B=S;B<=O;B++)if(!i.has(B,0)){x=0,k=o-1;break}if(!i.hasFixedWidth())for(var I=x;I<=k;I++)if(!i.has(0,I)){S=0,O=s-1;break}}this._childrenToDisplay=r({cellCache:this._cellCache,cellRenderer:t,columnSizeAndPositionManager:g.columnSizeAndPositionManager,columnStartIndex:x,columnStopIndex:k,deferredMeasurementCache:i,horizontalOffsetAdjustment:E,isScrolling:b,isScrollingOptOut:p,parent:this,rowSizeAndPositionManager:g.rowSizeAndPositionManager,rowStartIndex:S,rowStopIndex:O,scrollLeft:A,scrollTop:v,styleCache:this._styleCache,verticalOffsetAdjustment:_,visibleColumnIndices:m,visibleRowIndices:y}),this._columnStartIndex=x,this._columnStopIndex=k,this._rowStartIndex=S,this._rowStopIndex=O}}},{key:"_debounceScrollEnded",value:function(){var e=this.props.scrollingResetTimeInterval;this._disablePointerEventsTimeoutId&&L(this._disablePointerEventsTimeoutId),this._disablePointerEventsTimeoutId=F(this._debounceScrollEndedCallback,e)}},{key:"_handleInvalidatedGridSize",value:function(){if("number"==typeof this._deferredInvalidateColumnIndex&&"number"==typeof this._deferredInvalidateRowIndex){var e=this._deferredInvalidateColumnIndex,n=this._deferredInvalidateRowIndex;this._deferredInvalidateColumnIndex=null,this._deferredInvalidateRowIndex=null,this.recomputeGridSize({columnIndex:e,rowIndex:n})}}},{key:"_invokeOnScrollMemoizer",value:function(e){var n=this,t=e.scrollLeft,r=e.scrollTop,o=e.totalColumnsWidth,i=e.totalRowsHeight;this._onScrollMemoizer({callback:function(e){var t=e.scrollLeft,r=e.scrollTop,a=n.props,l=a.height;(0,a.onScroll)({clientHeight:l,clientWidth:a.width,scrollHeight:i,scrollLeft:t,scrollTop:r,scrollWidth:o})},indices:{scrollLeft:t,scrollTop:r}})}},{key:"_isScrolling",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return Object.hasOwnProperty.call(e,"isScrolling")?Boolean(e.isScrolling):Boolean(n.isScrolling)}},{key:"_maybeCallOnScrollbarPresenceChange",value:function(){if(this._scrollbarPresenceChanged){var e=this.props.onScrollbarPresenceChange;this._scrollbarPresenceChanged=!1,e({horizontal:this._horizontalScrollBarSize>0,size:this.state.instanceProps.scrollbarSize,vertical:this._verticalScrollBarSize>0})}}},{key:"scrollToPosition",value:function(e){var n=e.scrollLeft,r=e.scrollTop,o=t._getScrollToPositionStateUpdate({prevState:this.state,scrollLeft:n,scrollTop:r});o&&(o.needToResetStyleCache=!1,this.setState(o))}},{key:"_getCalculatedScrollLeft",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return t._getCalculatedScrollLeft(e,n)}},{key:"_updateScrollLeftForScrollToColumn",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,r=t._getScrollLeftForScrollToColumnStateUpdate(e,n);r&&(r.needToResetStyleCache=!1,this.setState(r))}},{key:"_getCalculatedScrollTop",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state;return t._getCalculatedScrollTop(e,n)}},{key:"_resetStyleCache",value:function(){var e=this._styleCache,n=this._cellCache,t=this.props.isScrollingOptOut;this._cellCache={},this._styleCache={};for(var r=this._rowStartIndex;r<=this._rowStopIndex;r++)for(var o=this._columnStartIndex;o<=this._columnStopIndex;o++){var i="".concat(r,"-").concat(o);this._styleCache[i]=e[i],t&&(this._cellCache[i]=n[i])}}},{key:"_updateScrollTopForScrollToRow",value:function(){var e=arguments.length>0&&void 0!==arguments[0]?arguments[0]:this.props,n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:this.state,r=t._getScrollTopForScrollToRowStateUpdate(e,n);r&&(r.needToResetStyleCache=!1,this.setState(r))}}],[{key:"getDerivedStateFromProps",value:function(e,n){var r={};0===e.columnCount&&0!==n.scrollLeft||0===e.rowCount&&0!==n.scrollTop?(r.scrollLeft=0,r.scrollTop=0):(e.scrollLeft!==n.scrollLeft&&e.scrollToColumn<0||e.scrollTop!==n.scrollTop&&e.scrollToRow<0)&&Object.assign(r,t._getScrollToPositionStateUpdate({prevState:n,scrollLeft:e.scrollLeft,scrollTop:e.scrollTop}));var o,i,a=n.instanceProps;return r.needToResetStyleCache=!1,e.columnWidth===a.prevColumnWidth&&e.rowHeight===a.prevRowHeight||(r.needToResetStyleCache=!0),a.columnSizeAndPositionManager.configure({cellCount:e.columnCount,estimatedCellSize:t._getEstimatedColumnSize(e),cellSizeGetter:t._wrapSizeGetter(e.columnWidth)}),a.rowSizeAndPositionManager.configure({cellCount:e.rowCount,estimatedCellSize:t._getEstimatedRowSize(e),cellSizeGetter:t._wrapSizeGetter(e.rowHeight)}),0!==a.prevColumnCount&&0!==a.prevRowCount||(a.prevColumnCount=0,a.prevRowCount=0),e.autoHeight&&!1===e.isScrolling&&!0===a.prevIsScrolling&&Object.assign(r,{isScrolling:!1}),y({cellCount:a.prevColumnCount,cellSize:"number"==typeof a.prevColumnWidth?a.prevColumnWidth:null,computeMetadataCallback:function(){return a.columnSizeAndPositionManager.resetCell(0)},computeMetadataCallbackProps:e,nextCellsCount:e.columnCount,nextCellSize:"number"==typeof 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t={key:Math.random(),label:e.props.getInitial()};e.setState({selected:t,filterValue:e.getValueForFilter(t)},(function(){e.props.onChange(t,n),e.props.onReset()}))})),Hu(Lu(e),"_inputShortcutHandler",(function(){e.state.focused&&e._popup&&!e._popup.isVisible()&&e._clickHandler()})),Hu(Lu(e),"addHandler",(function(){var n=e.filterValue();e._hidePopup(),e.props.onAdd(n)})),Hu(Lu(e),"getLowerCaseLabel",Ku),Hu(Lu(e),"doesLabelMatch",Yu),Hu(Lu(e),"_clickHandler",(function(){e.props.disabled||(e.state.showPopup?e._hidePopup():(e.props.onBeforeOpen(),e._showPopup()))})),Hu(Lu(e),"_filterChangeHandler",(function(n){e._setFilter(n.target.value,n)})),Hu(Lu(e),"_setFilter",(function(n){var t=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{};if((!e.isInputMode()||e.state.focused)&&n!==e.state.filterValue){var r=n.replace(/^\s+/g,"");if(e.props.onFilter(r),e.props.allowAny){var o={key:Math.random(),label:r};e.setState({selected:""===r?null:o,selectedIndex:null},(function(){e.props.onSelect(o,t),e.props.onChange(o,t)}))}!e._popup.isVisible()&&e.props.onBeforeOpen(),e.setState({filterValue:r},(function(){e._showPopup()}))}})),Hu(Lu(e),"_redrawPopup",(function(){e.props.multiple&&setTimeout((function(){e.isInputMode()&&e.clearFilter(),e._showPopup()}),0)})),Hu(Lu(e),"_listSelectHandler",(function(n,t){var r=arguments.length>2&&void 0!==arguments[2]?arguments[2]:{},o=ci.isItemType.bind(null,ci.ListProps.Type.ITEM),i=ci.isItemType.bind(null,ci.ListProps.Type.CUSTOM),a=t&&("select"===t.type||"keydown"===t.type);if(a&&t.preventDefault(),(o(n)||i(n))&&!n.disabled&&!n.isResetItem)if(e.props.multiple){var l=r.tryKeepOpen;if(l||e._hidePopup(a),null==n.key)throw new Error('Multiple selection requires each item to have the "key" property');e.setState((function(r){var o,i=r.selected;r.multipleMap[n.key]?(o=i.filter((function(e){return 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0!==arguments[0])||arguments[0],t=ci.isItemType.bind(null,ci.ListProps.Type.ITEM),r=ci.isItemType.bind(null,ci.ListProps.Type.CUSTOM);e.setState((function(o){var i,a=o.selected;return n?(i=e.props.data.filter((function(e){return(t(e)||r(e))&&!e.disabled}))).filter((function(n){return!e.props.selected.find((function(e){return n.key===e.key}))})).forEach((function(n){e.props.onSelect&&e.props.onSelect(n)})):(i=[],a.forEach((function(n){e.props.onDeselect&&e.props.onDeselect(n)}))),e.props.onChange(i,event),{filterValue:"",selected:i,selectedIndex:n?e._getSelectedIndex(i,e.props.data):null,shownData:o.shownData.map((function(e){return Wu(Wu({},e),{},{checkbox:n})})),multipleMap:n?Zu(e.props.data.filter((function(e){return!e.disabled}))):{}}}),e._redrawPopup)})),Hu(Lu(e),"_onCloseAttempt",(function(n,t){e.isInputMode()&&(e.props.allowAny||(e.props.hideSelected||!e.state.selected||e.props.multiple?e.clearFilter():e.state.selected&&e.filterValue(es(e.state.selected)))),e.props.tags&&n&&n.target&&n.target.matches('[data-test="ring-tag-remove"]')||e._hidePopup(t)})),Hu(Lu(e),"clearFilter",(function(n){e._setFilter("",n)})),Hu(Lu(e),"clear",(function(n){n&&n.stopPropagation();var t=l._getEmptyValue(e.props.multiple);return e.setState({selected:t,selectedIndex:null,filterValue:""},(function(){e.props.onChange&&e.props.onChange(t,n)})),!1})),Hu(Lu(e),"popupRef",(function(n){e._popup=n})),Hu(Lu(e),"buttonRef",(function(n){e.button=n})),Hu(Lu(e),"filterRef",(function(n){e.filter=n})),e}return t=l,o=[{key:"_getEmptyValue",value:function(e){return e?[]:null}},{key:"getDerivedStateFromProps",value:function(e,n){var t=e.multiple,r=e.data,o=e.type,i=n.prevSelected,a=n.prevData,c=n.prevMultiple,u=n.filterValue,s={prevData:r,prevSelected:e.selected,prevMultiple:t};if("data"in e&&r!==a){var f=Qu(e,n,u,r),p=f.filteredData,d=f.addButton;Object.assign(s,{shownData:p,addButton:d}),n.selected&&Object.assign(s,{selectedIndex:Ju(n.selected,r,t),prevFilterValue:ns(n.selected,o,u)})}if("selected"in e&&e.selected!==i){var h=e.selected||l._getEmptyValue(t),g=Ju(h,r||a,t);Object.assign(s,{selected:h,prevFilterValue:ns(h,o,u)}),t&&function(e,n){if(!e||!n||e.length!==n.length)return!1;var t=n.reduce((function(e,n){return e[n.key]=!0,e}),{});return e.every((function(e){return t[e.key]}))}(i,h)||Object.assign(s,{selectedIndex:g})}c===t||hi()(c,t)||(s.selected=l._getEmptyValue(t));var v=Wu(Wu({},n),s).selected;if(v&&t){s.multipleMap=Zu(v);var A=Qu(e,s,u,r),b=A.filteredData,m=A.addButton;Object.assign(s,{shownData:b,addButton:m})}return s}}],(r=[{key:"componentDidUpdate",value:function(e,n){var t=this.state,r=t.showPopup,o=t.selected,i=this.props,a=i.onClose,l=i.onOpen,c=i.onChange,u=i.multiple;n.showPopup&&!r?a(o):!n.showPopup&&r&&l(),u===e.multiple||hi()(u,e.multiple)||c(o)}},{key:"getValueForFilter",value:function(e){return ns(e,this.props.type,this.state.filterValue)}},{key:"_getSelectedIndex",value:function(e,n){return Ju(e,n,this.props.multiple)}},{key:"_getResetOption",value:function(){var n=this,t=this.state.selected&&this.state.selected.length,r=this.props.tags&&this.props.tags.reset;if(!t||!r)return null;var o=this.props.tags.reset;return{isResetItem:!0,separator:o.separator,key:o.label,rgItemType:ci.ListProps.Type.CUSTOM,template:e.createElement(Li,{text:!0,className:Bu().button,"data-test":"ring-select-reset-tags-button"},o.label),glyph:o.glyph,onClick:function(e,t){n.clear(t),n.clearFilter(),n.props.onFilter(""),n.setState((function(e){return{shownData:e.shownData.slice(o.separator?2:1),multipleMap:{}}})),n._redrawPopup()}}}},{key:"_prependResetOption",value:function(e){var n=this._getResetOption(),t={rgItemType:ci.ListProps.Type.MARGIN};if(n){var r=[t,n,t];return n.separator&&r.push({rgItemType:ci.ListProps.Type.SEPARATOR}),r.concat(e)}return e}},{key:"_renderPopup",value:function(){var n=this.props.targetElement||this.node,t=this.state,r=t.showPopup,o=t.shownData,i=this._prependResetOption(o),a=null;return this.props.loading?a=this.props.loadingMessage:o.length||(a=this.props.notFoundMessage),e.createElement(Su,{data:i,message:a,toolbar:r&&this.getToolbar(),loading:this.props.loading,activeIndex:this.state.selectedIndex,hidden:!r,ref:this.popupRef,maxHeight:this.props.maxHeight,minWidth:this.props.minWidth,directions:this.props.directions,className:this.props.popupClassName,style:this.props.popupStyle,top:this.props.top,left:this.props.left,filter:!this.isInputMode()&&this.props.filter,multiple:this.props.multiple,filterValue:this.state.filterValue,anchorElement:n,onCloseAttempt:this._onCloseAttempt,onSelect:this._listSelectHandler,onSelectAll:this._listSelectAllHandler,onFilter:this._filterChangeHandler,onClear:this.clearFilter,onLoadMore:this.props.onLoadMore,isInputMode:this.isInputMode(),selected:this.state.selected,tags:this.props.tags,compact:this.props.compact,renderOptimization:this.props.renderOptimization,ringPopupTarget:this.props.ringPopupTarget,disableMoveOverflow:this.props.disableMoveOverflow,disableScrollToActive:this.props.disableScrollToActive,dir:this.props.dir,onEmptyPopupEnter:this.onEmptyPopupEnter,listId:this.listId})}},{key:"_showPopup",value:function(){if(this.node){var e=this.getListItems(this.filterValue());this.setState({showPopup:!!e.length||!this.props.allowAny,shownData:e})}}},{key:"_hidePopup",value:function(e){if(this.node&&this.state.showPopup&&(this.setState({showPopup:!1,filterValue:""}),e)){var n=this.props.targetElement||this.node.querySelector("[data-test~=ring-select__focus]");n&&n.focus()}}},{key:"getToolbar",value:function(){var n=this.props.hint,t=this.state.addButton||{},r=t.prefix,o=t.label,i=t.delayed;return this.state.addButton||n?e.createElement("div",{className:a()(Hu({},Bu().toolbar,!!this.state.addButton)),"data-test":"ring-select-toolbar"},this.state.addButton&&e.createElement(Li,{text:!0,delayed:i,className:a()(Bu().button,Bu().buttonSpaced),onClick:this.addHandler,"data-test":"ring-select-toolbar-button"},r?"".concat(r," ").concat(o):o),n&&e.createElement(ci.ListHint,{label:n,"data-test":"ring-select-toolbar-hint"})):null}},{key:"getFilterFn",value:function(){return Xu(this.props.filter)}},{key:"getListItems",value:function(e,n){var t=Qu(this.props,this.state,e,n),r=t.filteredData,o=t.addButton;return this.setState({addButton:o}),r}},{key:"filterValue",value:function(e){if("string"!=typeof e&&"number"!=typeof e)return this.state.filterValue;this.setState({filterValue:e})}},{key:"isInputMode",value:function(){return $u(this.props.type)}},{key:"_rebuildMultipleMap",value:function(e,n){e&&n&&this.setState({multipleMap:Zu(e)})}},{key:"_selectionIsEmpty",value:function(){return this.props.multiple&&!this.state.selected.length||!this.state.selected}},{key:"_getLabel",value:function(){return this.props.label||this.props.selectedLabel||"Select an option"}},{key:"_getSelectedString",value:function(){if(this.props.multiple){for(var e=[],n=0;n<this.state.selected.length;n++)e.push(es(this.state.selected[n]));return e.filter(Boolean).join(", ")}return es(this.state.selected)}},{key:"_getIcons",value:function(){var n=this.state.selected,t=this.props,r=t.disabled,o=t.clear,i=t.hideArrow,a=[];return null!=n&&n.icon&&a.push(e.createElement("button",{title:"Toggle options popup",type:"button",className:Bu().selectedIcon,key:"selected",disabled:this.props.disabled,onClick:this._clickHandler,style:{backgroundImage:"url(".concat(n.icon,")")}})),!o||r||this._selectionIsEmpty()||a.push(e.createElement(Li,{title:"Clear selection","data-test":"ring-clear-select",className:Bu().clearIcon,key:"close",disabled:this.props.disabled,onClick:this.clear,icon:pi()})),i||a.push(e.createElement(Li,{title:"Toggle options popup",className:Bu().chevron,iconClassName:Bu().chevronIcon,icon:si(),key:"hide",disabled:this.props.disabled,onClick:this._clickHandler})),a}},{key:"_getAvatar",value:function(){return this.state.selected&&(this.state.selected.avatar||this.state.selected.showGeneratedAvatar)&&e.createElement(qt,{className:Bu().avatar,url:this.state.selected.avatar,username:this.state.selected.username,size:Gt})}},{key:"getShortcutsMap",value:function(){return{enter:this._onEnter,esc:this._onEsc,up:this._inputShortcutHandler,down:this._inputShortcutHandler,right:Gu,left:Gu,"shift+up":Gu,"shift+down":Gu,space:Gu}}},{key:"renderSelect",value:function(n){var t,r,o,i,l=this.props["data-test"],c=this.state.shortcutsEnabled,u=a()(Bu().select,"ring-js-shortcuts",this.props.className,(Hu(t={},Bu()["size".concat(this.props.size)],this.props.type!==qu.INLINE),Hu(t,Bu().disabled,this.props.disabled),t)),s=this._getIcons(),f=Vu(s.length),p=e.createElement("span",{className:Bu().icons},s),d=this.state.showPopup?{"aria-owns":this.listId,"aria-activedescendant":n}:{};switch(this.props.type){case qu.INPUT_WITHOUT_CONTROLS:case qu.INPUT:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().inputMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement(ul,Tu({},d,{autoComplete:"off",id:this.props.id,onClick:this._clickHandler,inputRef:this.filterRef,disabled:this.props.disabled,value:this.state.filterValue,borderless:this.props.type===qu.INPUT_WITHOUT_CONTROLS,style:f,size:ll.FULL,onChange:this._filterChangeHandler,onFocus:this._focusHandler,onBlur:this._blurHandler,label:this.props.type===qu.INPUT?this._getLabel():null,placeholder:this.props.inputPlaceholder,onKeyDown:this.props.onKeyDown,"data-test":"ring-select__focus",enableShortcuts:c?Object.keys(Wu(Wu({},this.getShortcutsMap()),null===(r=this._popup)||void 0===r||null===(o=r.list)||void 0===o?void 0:o.shortcutsMap)):void 0})),this.props.type===qu.INPUT&&p,this._renderPopup());case qu.BUTTON:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().buttonMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement("div",{className:Bu().buttonContainer},e.createElement(Li,Tu({},d,{id:this.props.id,onClick:this._clickHandler,className:a()(this.props.buttonClassName,Bu().buttonValue,Hu({},Bu().buttonValueOpen,this.state.showPopup)),disabled:this.props.disabled,style:f,"data-test":"ring-select__button ring-select__focus"}),this._getAvatar(),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),p),this._renderPopup());case qu.MATERIAL:return e.createElement("div",{ref:this.nodeRef,className:a()(u,Bu().materialMode),"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),!this._selectionIsEmpty()&&this.props.selectedLabel&&e.createElement("span",{className:Bu().selectedLabel},this.props.selectedLabel),e.createElement("button",Tu({},d,{id:this.props.id,onClick:this._clickHandler,type:"button",disabled:this.props.disabled,className:a()(this.props.buttonClassName,Bu().value,(i={},Hu(i,Bu().open,this.state.showPopup),Hu(i,Bu().label,this._selectionIsEmpty()),i)),"aria-label":this._getLabel(),style:f,"data-test":"ring-select__focus",ref:this.buttonRef}),this._getAvatar(),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),p,this._renderPopup());case qu.INLINE:return e.createElement("div",{className:u,ref:this.nodeRef,"data-test":Ne("ring-select",l)},c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),e.createElement(Vi,Tu({},d,{id:this.props.id,onClick:this._clickHandler,"data-test":"ring-select__focus",disabled:this.props.disabled,active:this.state.showPopup}),this._selectionIsEmpty()?this._getLabel():this._getSelectedString()),this._renderPopup());default:return this.props.customAnchor?e.createElement(e.Fragment,null,c&&e.createElement(An,{map:this.getShortcutsMap(),scope:this.shortcutsScope}),this.props.customAnchor({wrapperProps:{ref:this.nodeRef,"data-test":Ne("ring-select",l)},buttonProps:Wu(Wu({},d),{},{id:this.props.id,onClick:this._clickHandler,disabled:this.props.disabled,children:this._selectionIsEmpty()?this._getLabel():this._getSelectedString(),"data-test":"ring-select_focus"}),popup:this._renderPopup()})):e.createElement("span",{id:this.props.id,ref:this.nodeRef,"data-test":"ring-select"},this._renderPopup())}}},{key:"render",value:function(){var n=this;return e.createElement(li.Provider,null,e.createElement(li.ValueContext.Consumer,null,(function(e){return n.renderSelect(e)})))}}])&&Ru(t.prototype,r),o&&Ru(t,o),l}(e.Component);Hu(ts,"propTypes",{className:o().string,buttonClassName:o().string,id:o().string,multiple:o().oneOfType([o().bool,o().object]),allowAny:o().bool,filter:o().oneOfType([o().bool,o().object]),getInitial:o().func,onClose:o().func,onOpen:o().func,onDone:o().func,onFilter:o().func,onChange:o().func,onReset:o().func,onLoadMore:o().func,onAdd:o().func,onBeforeOpen:o().func,onSelect:o().func,onDeselect:o().func,onFocus:o().func,onBlur:o().func,onKeyDown:o().func,selected:o().oneOfType([o().object,o().array]),data:o().array,tags:o().object,targetElement:o().object,loading:o().bool,loadingMessage:o().string,notFoundMessage:o().string,maxHeight:o().number,minWidth:o().number,directions:o().array,popupClassName:o().string,popupStyle:o().object,top:o().number,left:o().number,renderOptimization:o().bool,ringPopupTarget:o().string,hint:ci.ListHint.propTypes.label,add:o().object,type:o().oneOf(Object.values(qu)),disabled:o().bool,hideSelected:o().bool,label:o().string,selectedLabel:o().oneOfType([o().string,o().arrayOf(o().node),o().node]),inputPlaceholder:o().string,clear:o().bool,hideArrow:o().bool,compact:o().bool,size:o().oneOf(Object.values(ll)),theme:o().string,customAnchor:o().func,disableMoveOverflow:o().bool,disableScrollToActive:o().bool,dir:o().oneOf(["ltr","rtl"]),"data-test":o().string}),Hu(ts,"defaultProps",{data:[],filter:!1,multiple:!1,clear:!1,loading:!1,disabled:!1,loadingMessage:"Loading...",notFoundMessage:"No options found",type:qu.MATERIAL,size:ll.M,targetElement:null,hideSelected:!1,allowAny:!1,hideArrow:!1,maxHeight:600,directions:[qa.PopupProps.Directions.BOTTOM_RIGHT,qa.PopupProps.Directions.BOTTOM_LEFT,qa.PopupProps.Directions.TOP_LEFT,qa.PopupProps.Directions.TOP_RIGHT],selected:null,label:"",selectedLabel:"",inputPlaceholder:"",hint:null,shortcutsEnabled:!1,onBeforeOpen:Gu,onLoadMore:Gu,onOpen:Gu,onClose:Gu,onFilter:Gu,onFocus:Gu,onBlur:Gu,onKeyDown:Gu,onSelect:Gu,onDeselect:Gu,onChange:Gu,onAdd:Gu,onDone:Gu,onReset:Gu,tags:null,onRemoveTag:Gu,ringPopupTarget:null,dir:"ltr"}),Hu(ts,"Type",qu),Hu(ts,"Size",ll),Hu(ts,"Theme",_i);(function(e){var n=arguments.length>1&&void 0!==arguments[1]?arguments[1]:{captureNode:!1},t=n.captureNode;if(t)throw new Error('rerenderHOC: captureNode={true} is deprecated. 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+//# sourceMappingURL=main.js.map
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diff --git a/docs/dokka/v0.2.0/scripts/navigation-loader.js b/docs/dokka/v0.2.0/scripts/navigation-loader.js
new file mode 100644
index 00000000..3df7ac8c
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/navigation-loader.js
@@ -0,0 +1,95 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+navigationPageText = fetch(pathToRoot + "navigation.html").then(response => response.text())
+
+displayNavigationFromPage = () => {
+    navigationPageText.then(data => {
+        document.getElementById("sideMenu").innerHTML = data;
+    }).then(() => {
+        document.querySelectorAll(".overview > a").forEach(link => {
+            link.setAttribute("href", pathToRoot + link.getAttribute("href"));
+        })
+    }).then(() => {
+        document.querySelectorAll(".sideMenuPart").forEach(nav => {
+            if (!nav.classList.contains("hidden"))
+                nav.classList.add("hidden")
+        })
+    }).then(() => {
+        revealNavigationForCurrentPage()
+    }).then(() => {
+        scrollNavigationToSelectedElement()
+    })
+    document.querySelectorAll('.footer a[href^="#"]').forEach(anchor => {
+        anchor.addEventListener('click', function (e) {
+            e.preventDefault();
+            document.querySelector(this.getAttribute('href')).scrollIntoView({
+                behavior: 'smooth'
+            });
+        });
+    });
+}
+
+revealNavigationForCurrentPage = () => {
+    let pageId = document.getElementById("content").attributes["pageIds"].value.toString();
+    let parts = document.querySelectorAll(".sideMenuPart");
+    let found = 0;
+    do {
+        parts.forEach(part => {
+            if (part.attributes['pageId'].value.indexOf(pageId) !== -1 && found === 0) {
+                found = 1;
+                if (part.classList.contains("hidden")) {
+                    part.classList.remove("hidden");
+                    part.setAttribute('data-active', "");
+                }
+                revealParents(part)
+            }
+        });
+        pageId = pageId.substring(0, pageId.lastIndexOf("/"))
+    } while (pageId.indexOf("/") !== -1 && found === 0)
+};
+revealParents = (part) => {
+    if (part.classList.contains("sideMenuPart")) {
+        if (part.classList.contains("hidden"))
+            part.classList.remove("hidden");
+        revealParents(part.parentNode)
+    }
+};
+
+scrollNavigationToSelectedElement = () => {
+    let selectedElement = document.querySelector('div.sideMenuPart[data-active]')
+    if (selectedElement == null) { // nothing selected, probably just the main page opened
+        return
+    }
+
+    let hasIcon = selectedElement.querySelectorAll(":scope > div.overview span.nav-icon").length > 0
+
+    // for instance enums also have children and are expandable, but are not package/module elements
+    let isPackageElement = selectedElement.children.length > 1 && !hasIcon
+    if (isPackageElement) {
+        // if package is selected or linked, it makes sense to align it to top
+        // so that you can see all the members it contains
+        selectedElement.scrollIntoView(true)
+    } else {
+        // if a member within a package is linked, it makes sense to center it since it,
+        // this should make it easier to look at surrounding members
+        selectedElement.scrollIntoView({
+            behavior: 'auto',
+            block: 'center',
+            inline: 'center'
+        })
+    }
+}
+
+/*
+    This is a work-around for safari being IE of our times.
+    It doesn't fire a DOMContentLoaded, presumabely because eventListener is added after it wants to do it
+*/
+if (document.readyState == 'loading') {
+    window.addEventListener('DOMContentLoaded', () => {
+        displayNavigationFromPage()
+    })
+} else {
+    displayNavigationFromPage()
+}
diff --git a/docs/dokka/v0.2.0/scripts/pages.json b/docs/dokka/v0.2.0/scripts/pages.json
new file mode 100644
index 00000000..2f929053
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/pages.json
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String","description":"org.veupathdb.lib.cli.diamond.DiamondCommand.command","location":"diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/command.html","searchKeys":["command","val command: String","org.veupathdb.lib.cli.diamond.DiamondCommand.command"]},{"name":"val entries: EnumEntries<BenchmarkType>","description":"org.veupathdb.lib.cli.diamond.opts.BenchmarkType.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-benchmark-type/entries.html","searchKeys":["entries","val entries: EnumEntries<BenchmarkType>","org.veupathdb.lib.cli.diamond.opts.BenchmarkType.entries"]},{"name":"val entries: EnumEntries<CompositionBasedStats>","description":"org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/entries.html","searchKeys":["entries","val entries: EnumEntries<CompositionBasedStats>","org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.entries"]},{"name":"val entries: EnumEntries<Compression>","description":"org.veupathdb.lib.cli.diamond.opts.Compression.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-compression/entries.html","searchKeys":["entries","val entries: EnumEntries<Compression>","org.veupathdb.lib.cli.diamond.opts.Compression.entries"]},{"name":"val entries: EnumEntries<DNAExtensionAlgorithm>","description":"org.veupathdb.lib.cli.diamond.opts.DNAExtensionAlgorithm.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-d-n-a-extension-algorithm/entries.html","searchKeys":["entries","val entries: EnumEntries<DNAExtensionAlgorithm>","org.veupathdb.lib.cli.diamond.opts.DNAExtensionAlgorithm.entries"]},{"name":"val entries: EnumEntries<DiamondCommand>","description":"org.veupathdb.lib.cli.diamond.DiamondCommand.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond/-diamond-command/entries.html","searchKeys":["entries","val entries: EnumEntries<DiamondCommand>","org.veupathdb.lib.cli.diamond.DiamondCommand.entries"]},{"name":"val entries: EnumEntries<DistributionType>","description":"org.veupathdb.lib.cli.diamond.opts.DistributionType.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-distribution-type/entries.html","searchKeys":["entries","val entries: EnumEntries<DistributionType>","org.veupathdb.lib.cli.diamond.opts.DistributionType.entries"]},{"name":"val entries: EnumEntries<EdgeFormat>","description":"org.veupathdb.lib.cli.diamond.opts.EdgeFormat.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-edge-format/entries.html","searchKeys":["entries","val entries: EnumEntries<EdgeFormat>","org.veupathdb.lib.cli.diamond.opts.EdgeFormat.entries"]},{"name":"val entries: EnumEntries<ExtensionMode>","description":"org.veupathdb.lib.cli.diamond.opts.ExtensionMode.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/entries.html","searchKeys":["entries","val entries: EnumEntries<ExtensionMode>","org.veupathdb.lib.cli.diamond.opts.ExtensionMode.entries"]},{"name":"val entries: EnumEntries<FormatField>","description":"org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/entries.html","searchKeys":["entries","val entries: EnumEntries<FormatField>","org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.entries"]},{"name":"val entries: EnumEntries<GraphAlgorithm>","description":"org.veupathdb.lib.cli.diamond.opts.GraphAlgorithm.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-graph-algorithm/entries.html","searchKeys":["entries","val entries: EnumEntries<GraphAlgorithm>","org.veupathdb.lib.cli.diamond.opts.GraphAlgorithm.entries"]},{"name":"val entries: EnumEntries<HeaderOption>","description":"org.veupathdb.lib.cli.diamond.opts.HeaderOption.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-header-option/entries.html","searchKeys":["entries","val entries: EnumEntries<HeaderOption>","org.veupathdb.lib.cli.diamond.opts.HeaderOption.entries"]},{"name":"val entries: EnumEntries<InputType>","description":"org.veupathdb.lib.cli.diamond.opts.InputType.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-input-type/entries.html","searchKeys":["entries","val entries: EnumEntries<InputType>","org.veupathdb.lib.cli.diamond.opts.InputType.entries"]},{"name":"val entries: EnumEntries<MaskingMode>","description":"org.veupathdb.lib.cli.diamond.opts.MaskingMode.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/entries.html","searchKeys":["entries","val entries: EnumEntries<MaskingMode>","org.veupathdb.lib.cli.diamond.opts.MaskingMode.entries"]},{"name":"val entries: EnumEntries<MotifMaskingAlgorithm>","description":"org.veupathdb.lib.cli.diamond.opts.MotifMaskingAlgorithm.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/entries.html","searchKeys":["entries","val entries: EnumEntries<MotifMaskingAlgorithm>","org.veupathdb.lib.cli.diamond.opts.MotifMaskingAlgorithm.entries"]},{"name":"val entries: EnumEntries<OutputFormat>","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/entries.html","searchKeys":["entries","val entries: EnumEntries<OutputFormat>","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.entries"]},{"name":"val entries: EnumEntries<QueryFileFormat>","description":"org.veupathdb.lib.cli.diamond.opts.QueryFileFormat.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-file-format/entries.html","searchKeys":["entries","val entries: EnumEntries<QueryFileFormat>","org.veupathdb.lib.cli.diamond.opts.QueryFileFormat.entries"]},{"name":"val entries: EnumEntries<QueryStrand>","description":"org.veupathdb.lib.cli.diamond.opts.QueryStrand.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-query-strand/entries.html","searchKeys":["entries","val entries: EnumEntries<QueryStrand>","org.veupathdb.lib.cli.diamond.opts.QueryStrand.entries"]},{"name":"val entries: EnumEntries<ScoreMatrix>","description":"org.veupathdb.lib.cli.diamond.opts.ScoreMatrix.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-score-matrix/entries.html","searchKeys":["entries","val entries: EnumEntries<ScoreMatrix>","org.veupathdb.lib.cli.diamond.opts.ScoreMatrix.entries"]},{"name":"val entries: EnumEntries<Sensitivity>","description":"org.veupathdb.lib.cli.diamond.opts.Sensitivity.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-sensitivity/entries.html","searchKeys":["entries","val entries: EnumEntries<Sensitivity>","org.veupathdb.lib.cli.diamond.opts.Sensitivity.entries"]},{"name":"val entries: EnumEntries<SequenceType>","description":"org.veupathdb.lib.cli.diamond.opts.SequenceType.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-sequence-type/entries.html","searchKeys":["entries","val entries: EnumEntries<SequenceType>","org.veupathdb.lib.cli.diamond.opts.SequenceType.entries"]},{"name":"val entries: EnumEntries<SoftMaskingAlgorithm>","description":"org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/entries.html","searchKeys":["entries","val entries: EnumEntries<SoftMaskingAlgorithm>","org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.entries"]},{"name":"val entries: EnumEntries<TranslatorGenCode>","description":"org.veupathdb.lib.cli.diamond.opts.TranslatorGenCode.entries","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-translator-gen-code/entries.html","searchKeys":["entries","val entries: EnumEntries<TranslatorGenCode>","org.veupathdb.lib.cli.diamond.opts.TranslatorGenCode.entries"]},{"name":"val hasIntForm: Boolean","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.hasIntForm","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-int-form.html","searchKeys":["hasIntForm","val hasIntForm: Boolean","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.hasIntForm"]},{"name":"val hasStringForm: Boolean","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.hasStringForm","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/has-string-form.html","searchKeys":["hasStringForm","val hasStringForm: Boolean","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.hasStringForm"]},{"name":"val intForm: Int","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.intForm","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/int-form.html","searchKeys":["intForm","val intForm: Int","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.intForm"]},{"name":"val jsonName: String","description":"org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.jsonName","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/json-name.html","searchKeys":["jsonName","val jsonName: String","org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.jsonName"]},{"name":"val jsonValue: String","description":"org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.jsonValue","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/json-value.html","searchKeys":["jsonValue","val jsonValue: String","org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.jsonValue"]},{"name":"val jsonValue: String","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.jsonValue","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/json-value.html","searchKeys":["jsonValue","val jsonValue: String","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.jsonValue"]},{"name":"val jsonValue: String","description":"org.veupathdb.lib.cli.diamond.opts.output_format.SimpleOutputFormat.jsonValue","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/json-value.html","searchKeys":["jsonValue","val jsonValue: String","org.veupathdb.lib.cli.diamond.opts.output_format.SimpleOutputFormat.jsonValue"]},{"name":"val key: String","description":"org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.key","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/key.html","searchKeys":["key","val key: String","org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.key"]},{"name":"val key: String","description":"org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.key","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-format-field/key.html","searchKeys":["key","val key: String","org.veupathdb.lib.cli.diamond.opts.output_format.FormatField.key"]},{"name":"val rawCliValue: Int","description":"org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.rawCliValue","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-composition-based-stats/raw-cli-value.html","searchKeys":["rawCliValue","val rawCliValue: Int","org.veupathdb.lib.cli.diamond.opts.CompositionBasedStats.rawCliValue"]},{"name":"val stringForm: String","description":"org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.stringForm","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-output-format/string-form.html","searchKeys":["stringForm","val stringForm: String","org.veupathdb.lib.cli.diamond.opts.output_format.OutputFormat.stringForm"]},{"name":"val value: String","description":"org.veupathdb.lib.cli.diamond.opts.ExtensionMode.value","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-extension-mode/value.html","searchKeys":["value","val value: String","org.veupathdb.lib.cli.diamond.opts.ExtensionMode.value"]},{"name":"val value: String","description":"org.veupathdb.lib.cli.diamond.opts.MaskingMode.value","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-masking-mode/value.html","searchKeys":["value","val value: String","org.veupathdb.lib.cli.diamond.opts.MaskingMode.value"]},{"name":"val value: String","description":"org.veupathdb.lib.cli.diamond.opts.MotifMaskingAlgorithm.value","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-motif-masking-algorithm/value.html","searchKeys":["value","val value: String","org.veupathdb.lib.cli.diamond.opts.MotifMaskingAlgorithm.value"]},{"name":"val value: UByte","description":"org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.value","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts/-soft-masking-algorithm/value.html","searchKeys":["value","val value: UByte","org.veupathdb.lib.cli.diamond.opts.SoftMaskingAlgorithm.value"]},{"name":"value class SimpleOutputFormat : OutputFormatOptions","description":"org.veupathdb.lib.cli.diamond.opts.output_format.SimpleOutputFormat","location":"diamondcli/org.veupathdb.lib.cli.diamond.opts.output_format/-simple-output-format/index.html","searchKeys":["SimpleOutputFormat","value class SimpleOutputFormat : OutputFormatOptions","org.veupathdb.lib.cli.diamond.opts.output_format.SimpleOutputFormat"]}]
diff --git a/docs/dokka/v0.2.0/scripts/platform-content-handler.js b/docs/dokka/v0.2.0/scripts/platform-content-handler.js
new file mode 100644
index 00000000..811c4788
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/platform-content-handler.js
@@ -0,0 +1,400 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+filteringContext = {
+    dependencies: {},
+    restrictedDependencies: [],
+    activeFilters: []
+}
+let highlightedAnchor;
+let topNavbarOffset;
+let instances = [];
+let sourcesetNotification;
+
+const samplesDarkThemeName = 'darcula'
+const samplesLightThemeName = 'idea'
+
+window.addEventListener('load', () => {
+    document.querySelectorAll("div[data-platform-hinted]")
+        .forEach(elem => elem.addEventListener('click', (event) => togglePlatformDependent(event, elem)))
+    const filterSection = document.getElementById('filter-section')
+    if (filterSection) {
+        filterSection.addEventListener('click', (event) => filterButtonHandler(event))
+        initializeFiltering()
+    }
+    initTabs()
+    handleAnchor()
+    initHidingLeftNavigation()
+    topNavbarOffset = document.getElementById('navigation-wrapper')
+    darkModeSwitch()
+})
+
+const darkModeSwitch = () => {
+    const localStorageKey = "dokka-dark-mode"
+    const storage = localStorage.getItem(localStorageKey)
+    const osDarkSchemePreferred = window.matchMedia && window.matchMedia('(prefers-color-scheme: dark)').matches
+    const darkModeEnabled = storage ? JSON.parse(storage) : osDarkSchemePreferred
+    const element = document.getElementById("theme-toggle-button")
+    initPlayground(darkModeEnabled ? samplesDarkThemeName : samplesLightThemeName)
+
+    element.addEventListener('click', () => {
+        const enabledClasses = document.getElementsByTagName("html")[0].classList
+        enabledClasses.toggle("theme-dark")
+
+        //if previously we had saved dark theme then we set it to light as this is what we save in local storage
+        const darkModeEnabled = enabledClasses.contains("theme-dark")
+        if (darkModeEnabled) {
+            initPlayground(samplesDarkThemeName)
+        } else {
+            initPlayground(samplesLightThemeName)
+        }
+        localStorage.setItem(localStorageKey, JSON.stringify(darkModeEnabled))
+    })
+}
+
+const initPlayground = (theme) => {
+    if (!samplesAreEnabled()) return
+    instances.forEach(instance => instance.destroy())
+    instances = []
+
+    // Manually tag code fragments as not processed by playground since we also manually destroy all of its instances
+    document.querySelectorAll('code.runnablesample').forEach(node => {
+        node.removeAttribute("data-kotlin-playground-initialized");
+    })
+
+    KotlinPlayground('code.runnablesample', {
+        getInstance: playgroundInstance => {
+            instances.push(playgroundInstance)
+        },
+        theme: theme
+    });
+}
+
+// We check if type is accessible from the current scope to determine if samples script is present
+// As an alternative we could extract this samples-specific script to new js file but then we would handle dark mode in 2 separate files which is not ideal
+const samplesAreEnabled = () => {
+    try {
+        KotlinPlayground
+        return true
+    } catch (e) {
+        return false
+    }
+}
+
+
+const initHidingLeftNavigation = () => {
+    document.getElementById("menu-toggle").onclick = function (event) {
+        //Events need to be prevented from bubbling since they will trigger next handler
+        event.preventDefault();
+        event.stopPropagation();
+        event.stopImmediatePropagation();
+        document.getElementById("leftColumn").classList.toggle("open");
+    }
+
+    document.getElementById("main").onclick = () => {
+        document.getElementById("leftColumn").classList.remove("open");
+    }
+}
+
+// Hash change is needed in order to allow for linking inside the same page with anchors
+// If this is not present user is forced to refresh the site in order to use an anchor
+window.onhashchange = handleAnchor
+
+function scrollToElementInContent(element) {
+    const scrollToElement = () => document.getElementById('main').scrollTo({
+        top: element.offsetTop - topNavbarOffset.offsetHeight,
+        behavior: "smooth"
+    })
+
+    const waitAndScroll = () => {
+        setTimeout(() => {
+            if (topNavbarOffset) {
+                scrollToElement()
+            } else {
+                waitForScroll()
+            }
+        }, 50)
+    }
+
+    if (topNavbarOffset) {
+        scrollToElement()
+    } else {
+        waitAndScroll()
+    }
+}
+
+
+function handleAnchor() {
+    if (highlightedAnchor) {
+        highlightedAnchor.classList.remove('anchor-highlight')
+        highlightedAnchor = null;
+    }
+
+    let searchForContentTarget = function (element) {
+        if (element && element.hasAttribute) {
+            if (element.hasAttribute("data-togglable")) return element.getAttribute("data-togglable");
+            else return searchForContentTarget(element.parentNode)
+        } else return null
+    }
+
+    let findAnyTab = function (target) {
+    	let result = null
+        document.querySelectorAll('div[tabs-section] > button[data-togglable]')
+        .forEach(node => {
+            if(node.getAttribute("data-togglable").split(",").includes(target)) {
+            	result = node
+            }
+        })
+        return result
+    }
+
+    let anchor = window.location.hash
+    if (anchor != "") {
+        anchor = anchor.substring(1)
+        let element = document.querySelector('a[data-name="' + anchor + '"]')
+
+        if (element) {
+            const content = element.nextElementSibling
+            const contentStyle = window.getComputedStyle(content)
+            if(contentStyle.display == 'none') {
+		 let tab = findAnyTab(searchForContentTarget(content))
+		 if (tab) {
+		     toggleSections(tab)
+		 }
+            }
+
+            if (content) {
+                content.classList.add('anchor-highlight')
+                highlightedAnchor = content
+            }
+
+            scrollToElementInContent(element)
+        }
+    }
+}
+
+function initTabs() {
+    // we could have only a single type of data - classlike or package
+    const mainContent = document.querySelector('.main-content');
+    const type = mainContent ? mainContent.getAttribute("data-page-type") : null;
+    const localStorageKey = "active-tab-" + type;
+    document.querySelectorAll('div[tabs-section]').forEach(element => {
+        showCorrespondingTabBody(element);
+        element.addEventListener('click', ({target}) => {
+            const togglable = target ? target.getAttribute("data-togglable") : null;
+            if (!togglable) return;
+
+            localStorage.setItem(localStorageKey, JSON.stringify(togglable));
+            toggleSections(target);
+        });
+    });
+
+    const cached = localStorage.getItem(localStorageKey);
+    if (!cached) return;
+
+    const tab = document.querySelector(
+        'div[tabs-section] > button[data-togglable="' + JSON.parse(cached) + '"]'
+    );
+    if (!tab) return;
+
+    toggleSections(tab);
+}
+
+function showCorrespondingTabBody(element) {
+    const buttonWithKey = element.querySelector("button[data-active]")
+    if (buttonWithKey) {
+        toggleSections(buttonWithKey)
+    }
+}
+
+function filterButtonHandler(event) {
+    if (event.target.tagName == "BUTTON" && event.target.hasAttribute("data-filter")) {
+        let sourceset = event.target.getAttribute("data-filter")
+        if (filteringContext.activeFilters.indexOf(sourceset) != -1) {
+            filterSourceset(sourceset)
+        } else {
+            unfilterSourceset(sourceset)
+        }
+    }
+}
+
+function initializeFiltering() {
+    filteringContext.dependencies = JSON.parse(sourceset_dependencies)
+    document.querySelectorAll("#filter-section > button")
+        .forEach(p => filteringContext.restrictedDependencies.push(p.getAttribute("data-filter")))
+    Object.keys(filteringContext.dependencies).forEach(p => {
+        filteringContext.dependencies[p] = filteringContext.dependencies[p]
+            .filter(q => -1 !== filteringContext.restrictedDependencies.indexOf(q))
+    })
+    let cached = window.localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        filteringContext.activeFilters = filteringContext.restrictedDependencies
+            .filter(q => parsed.indexOf(q) == -1)
+    } else {
+        filteringContext.activeFilters = filteringContext.restrictedDependencies
+    }
+    refreshFiltering()
+}
+
+function filterSourceset(sourceset) {
+    filteringContext.activeFilters = filteringContext.activeFilters.filter(p => p != sourceset)
+    refreshFiltering()
+    addSourcesetFilterToCache(sourceset)
+}
+
+function unfilterSourceset(sourceset) {
+    if (filteringContext.activeFilters.length == 0) {
+        filteringContext.activeFilters = filteringContext.dependencies[sourceset].concat([sourceset])
+        refreshFiltering()
+        filteringContext.dependencies[sourceset].concat([sourceset]).forEach(p => removeSourcesetFilterFromCache(p))
+    } else {
+        filteringContext.activeFilters.push(sourceset)
+        refreshFiltering()
+        removeSourcesetFilterFromCache(sourceset)
+    }
+
+}
+
+function addSourcesetFilterToCache(sourceset) {
+    let cached = localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        localStorage.setItem('inactive-filters', JSON.stringify(parsed.concat([sourceset])))
+    } else {
+        localStorage.setItem('inactive-filters', JSON.stringify([sourceset]))
+    }
+}
+
+function removeSourcesetFilterFromCache(sourceset) {
+    let cached = localStorage.getItem('inactive-filters')
+    if (cached) {
+        let parsed = JSON.parse(cached)
+        localStorage.setItem('inactive-filters', JSON.stringify(parsed.filter(p => p != sourceset)))
+    }
+}
+
+function toggleSections(target) {
+    const activateTabs = (containerClass) => {
+        for (const element of document.getElementsByClassName(containerClass)) {
+            for (const child of element.children) {
+                if (child.getAttribute("data-togglable") === target.getAttribute("data-togglable")) {
+                    child.setAttribute("data-active", "")
+                } else {
+                    child.removeAttribute("data-active")
+                }
+            }
+        }
+    }
+    const toggleTargets = target.getAttribute("data-togglable").split(",")
+    const activateTabsBody = (containerClass) => {
+        document.querySelectorAll("." + containerClass + " *[data-togglable]")
+            .forEach(child => {
+                    if (toggleTargets.includes(child.getAttribute("data-togglable"))) {
+                        child.setAttribute("data-active", "")
+                    } else if(!child.classList.contains("sourceset-dependent-content")) { // data-togglable is used to switch source set as well, ignore it
+                        child.removeAttribute("data-active")
+                    }
+            })
+    }
+    activateTabs("tabs-section")
+    activateTabsBody("tabs-section-body")
+}
+
+function togglePlatformDependent(e, container) {
+    let target = e.target
+    if (target.tagName != 'BUTTON') return;
+    let index = target.getAttribute('data-toggle')
+
+    for (let child of container.children) {
+        if (child.hasAttribute('data-toggle-list')) {
+            for (let bm of child.children) {
+                if (bm == target) {
+                    bm.setAttribute('data-active', "")
+                } else if (bm != target) {
+                    bm.removeAttribute('data-active')
+                }
+            }
+        } else if (child.getAttribute('data-togglable') == index) {
+            child.setAttribute('data-active', "")
+        } else {
+            child.removeAttribute('data-active')
+        }
+    }
+}
+
+function refreshFiltering() {
+    let sourcesetList = filteringContext.activeFilters
+    document.querySelectorAll("[data-filterable-set]")
+        .forEach(
+            elem => {
+                let platformList = elem.getAttribute("data-filterable-set").split(',').filter(v => -1 !== sourcesetList.indexOf(v))
+                elem.setAttribute("data-filterable-current", platformList.join(','))
+            }
+        )
+    refreshFilterButtons()
+    refreshPlatformTabs()
+    refreshNoContentNotification()
+    refreshPlaygroundSamples()
+}
+
+function refreshPlaygroundSamples() {
+    document.querySelectorAll('code.runnablesample').forEach(node => {
+        const playground = node.KotlinPlayground;
+        /* Some samples may be hidden by filter, they have 0px height  for visible code area
+         * after rendering. Call this method for re-calculate code area height */
+        playground && playground.view.codemirror.refresh();
+    });
+}
+
+function refreshNoContentNotification() {
+    const element = document.getElementsByClassName("main-content")[0]
+    if(filteringContext.activeFilters.length === 0){
+        element.style.display = "none";
+
+        const appended = document.createElement("div")
+        appended.className = "filtered-message"
+        appended.innerText = "All documentation is filtered, please adjust your source set filters in top-right corner of the screen"
+        sourcesetNotification = appended
+        element.parentNode.prepend(appended)
+    } else {
+        if(sourcesetNotification) sourcesetNotification.remove()
+        element.style.display = "block"
+    }
+}
+
+function refreshPlatformTabs() {
+    document.querySelectorAll(".platform-hinted > .platform-bookmarks-row").forEach(
+        p => {
+            let active = false;
+            let firstAvailable = null
+            p.childNodes.forEach(
+                element => {
+                    if (element.getAttribute("data-filterable-current") != '') {
+                        if (firstAvailable == null) {
+                            firstAvailable = element
+                        }
+                        if (element.hasAttribute("data-active")) {
+                            active = true;
+                        }
+                    }
+                }
+            )
+            if (active == false && firstAvailable) {
+                firstAvailable.click()
+            }
+        }
+    )
+}
+
+function refreshFilterButtons() {
+    document.querySelectorAll("#filter-section > button")
+        .forEach(f => {
+            if (filteringContext.activeFilters.indexOf(f.getAttribute("data-filter")) != -1) {
+                f.setAttribute("data-active", "")
+            } else {
+                f.removeAttribute("data-active")
+            }
+        })
+}
diff --git a/docs/dokka/v0.2.0/scripts/prism.js b/docs/dokka/v0.2.0/scripts/prism.js
new file mode 100644
index 00000000..07423626
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/prism.js
@@ -0,0 +1,22 @@
+/* PrismJS 1.29.0
+https://prismjs.com/download.html#themes=prism&languages=markup+css+clike+javascript+java+javadoc+javadoclike+kotlin&plugins=keep-markup */
+var _self="undefined"!=typeof window?window:"undefined"!=typeof WorkerGlobalScope&&self instanceof WorkerGlobalScope?self:{},Prism=function(e){var n=/(?:^|\s)lang(?:uage)?-([\w-]+)(?=\s|$)/i,t=0,r={},a={manual:e.Prism&&e.Prism.manual,disableWorkerMessageHandler:e.Prism&&e.Prism.disableWorkerMessageHandler,util:{encode:function e(n){return n instanceof i?new i(n.type,e(n.content),n.alias):Array.isArray(n)?n.map(e):n.replace(/&/g,"&amp;").replace(/</g,"&lt;").replace(/\u00a0/g," ")},type:function(e){return Object.prototype.toString.call(e).slice(8,-1)},objId:function(e){return e.__id||Object.defineProperty(e,"__id",{value:++t}),e.__id},clone:function e(n,t){var r,i;switch(t=t||{},a.util.type(n)){case"Object":if(i=a.util.objId(n),t[i])return t[i];for(var l in r={},t[i]=r,n)n.hasOwnProperty(l)&&(r[l]=e(n[l],t));return r;case"Array":return i=a.util.objId(n),t[i]?t[i]:(r=[],t[i]=r,n.forEach((function(n,a){r[a]=e(n,t)})),r);default:return n}},getLanguage:function(e){for(;e;){var t=n.exec(e.className);if(t)return t[1].toLowerCase();e=e.parentElement}return"none"},setLanguage:function(e,t){e.className=e.className.replace(RegExp(n,"gi"),""),e.classList.add("language-"+t)},currentScript:function(){if("undefined"==typeof document)return null;if("currentScript"in document)return document.currentScript;try{throw new Error}catch(r){var e=(/at [^(\r\n]*\((.*):[^:]+:[^:]+\)$/i.exec(r.stack)||[])[1];if(e){var n=document.getElementsByTagName("script");for(var t in n)if(n[t].src==e)return n[t]}return null}},isActive:function(e,n,t){for(var r="no-"+n;e;){var a=e.classList;if(a.contains(n))return!0;if(a.contains(r))return!1;e=e.parentElement}return!!t}},languages:{plain:r,plaintext:r,text:r,txt:r,extend:function(e,n){var t=a.util.clone(a.languages[e]);for(var r in n)t[r]=n[r];return t},insertBefore:function(e,n,t,r){var i=(r=r||a.languages)[e],l={};for(var o in i)if(i.hasOwnProperty(o)){if(o==n)for(var s in t)t.hasOwnProperty(s)&&(l[s]=t[s]);t.hasOwnProperty(o)||(l[o]=i[o])}var u=r[e];return r[e]=l,a.languages.DFS(a.languages,(function(n,t){t===u&&n!=e&&(this[n]=l)})),l},DFS:function e(n,t,r,i){i=i||{};var l=a.util.objId;for(var o in n)if(n.hasOwnProperty(o)){t.call(n,o,n[o],r||o);var s=n[o],u=a.util.type(s);"Object"!==u||i[l(s)]?"Array"!==u||i[l(s)]||(i[l(s)]=!0,e(s,t,o,i)):(i[l(s)]=!0,e(s,t,null,i))}}},plugins:{},highlightAll:function(e,n){a.highlightAllUnder(document,e,n)},highlightAllUnder:function(e,n,t){var r={callback:t,container:e,selector:'code[class*="language-"], [class*="language-"] code, code[class*="lang-"], [class*="lang-"] code'};a.hooks.run("before-highlightall",r),r.elements=Array.prototype.slice.apply(r.container.querySelectorAll(r.selector)),a.hooks.run("before-all-elements-highlight",r);for(var i,l=0;i=r.elements[l++];)a.highlightElement(i,!0===n,r.callback)},highlightElement:function(n,t,r){var i=a.util.getLanguage(n),l=a.languages[i];a.util.setLanguage(n,i);var o=n.parentElement;o&&"pre"===o.nodeName.toLowerCase()&&a.util.setLanguage(o,i);var s={element:n,language:i,grammar:l,code:n.textContent};function u(e){s.highlightedCode=e,a.hooks.run("before-insert",s),s.element.innerHTML=s.highlightedCode,a.hooks.run("after-highlight",s),a.hooks.run("complete",s),r&&r.call(s.element)}if(a.hooks.run("before-sanity-check",s),(o=s.element.parentElement)&&"pre"===o.nodeName.toLowerCase()&&!o.hasAttribute("tabindex")&&o.setAttribute("tabindex","0"),!s.code)return a.hooks.run("complete",s),void(r&&r.call(s.element));if(a.hooks.run("before-highlight",s),s.grammar)if(t&&e.Worker){var c=new Worker(a.filename);c.onmessage=function(e){u(e.data)},c.postMessage(JSON.stringify({language:s.language,code:s.code,immediateClose:!0}))}else u(a.highlight(s.code,s.grammar,s.language));else u(a.util.encode(s.code))},highlight:function(e,n,t){var r={code:e,grammar:n,language:t};if(a.hooks.run("before-tokenize",r),!r.grammar)throw new Error('The language "'+r.language+'" has no grammar.');return r.tokens=a.tokenize(r.code,r.grammar),a.hooks.run("after-tokenize",r),i.stringify(a.util.encode(r.tokens),r.language)},tokenize:function(e,n){var t=n.rest;if(t){for(var r in t)n[r]=t[r];delete n.rest}var a=new s;return u(a,a.head,e),o(e,a,n,a.head,0),function(e){for(var n=[],t=e.head.next;t!==e.tail;)n.push(t.value),t=t.next;return n}(a)},hooks:{all:{},add:function(e,n){var t=a.hooks.all;t[e]=t[e]||[],t[e].push(n)},run:function(e,n){var t=a.hooks.all[e];if(t&&t.length)for(var r,i=0;r=t[i++];)r(n)}},Token:i};function i(e,n,t,r){this.type=e,this.content=n,this.alias=t,this.length=0|(r||"").length}function l(e,n,t,r){e.lastIndex=n;var a=e.exec(t);if(a&&r&&a[1]){var i=a[1].length;a.index+=i,a[0]=a[0].slice(i)}return a}function o(e,n,t,r,s,g){for(var f in t)if(t.hasOwnProperty(f)&&t[f]){var h=t[f];h=Array.isArray(h)?h:[h];for(var d=0;d<h.length;++d){if(g&&g.cause==f+","+d)return;var v=h[d],p=v.inside,m=!!v.lookbehind,y=!!v.greedy,k=v.alias;if(y&&!v.pattern.global){var x=v.pattern.toString().match(/[imsuy]*$/)[0];v.pattern=RegExp(v.pattern.source,x+"g")}for(var b=v.pattern||v,w=r.next,A=s;w!==n.tail&&!(g&&A>=g.reach);A+=w.value.length,w=w.next){var E=w.value;if(n.length>e.length)return;if(!(E instanceof i)){var P,L=1;if(y){if(!(P=l(b,A,e,m))||P.index>=e.length)break;var S=P.index,O=P.index+P[0].length,j=A;for(j+=w.value.length;S>=j;)j+=(w=w.next).value.length;if(A=j-=w.value.length,w.value instanceof i)continue;for(var C=w;C!==n.tail&&(j<O||"string"==typeof C.value);C=C.next)L++,j+=C.value.length;L--,E=e.slice(A,j),P.index-=A}else if(!(P=l(b,0,E,m)))continue;S=P.index;var N=P[0],_=E.slice(0,S),M=E.slice(S+N.length),W=A+E.length;g&&W>g.reach&&(g.reach=W);var z=w.prev;if(_&&(z=u(n,z,_),A+=_.length),c(n,z,L),w=u(n,z,new i(f,p?a.tokenize(N,p):N,k,N)),M&&u(n,w,M),L>1){var I={cause:f+","+d,reach:W};o(e,n,t,w.prev,A,I),g&&I.reach>g.reach&&(g.reach=I.reach)}}}}}}function s(){var e={value:null,prev:null,next:null},n={value:null,prev:e,next:null};e.next=n,this.head=e,this.tail=n,this.length=0}function u(e,n,t){var r=n.next,a={value:t,prev:n,next:r};return n.next=a,r.prev=a,e.length++,a}function c(e,n,t){for(var r=n.next,a=0;a<t&&r!==e.tail;a++)r=r.next;n.next=r,r.prev=n,e.length-=a}if(e.Prism=a,i.stringify=function e(n,t){if("string"==typeof n)return n;if(Array.isArray(n)){var r="";return n.forEach((function(n){r+=e(n,t)})),r}var i={type:n.type,content:e(n.content,t),tag:"span",classes:["token",n.type],attributes:{},language:t},l=n.alias;l&&(Array.isArray(l)?Array.prototype.push.apply(i.classes,l):i.classes.push(l)),a.hooks.run("wrap",i);var o="";for(var s in i.attributes)o+=" "+s+'="'+(i.attributes[s]||"").replace(/"/g,"&quot;")+'"';return"<"+i.tag+' class="'+i.classes.join(" ")+'"'+o+">"+i.content+"</"+i.tag+">"},!e.document)return e.addEventListener?(a.disableWorkerMessageHandler||e.addEventListener("message",(function(n){var t=JSON.parse(n.data),r=t.language,i=t.code,l=t.immediateClose;e.postMessage(a.highlight(i,a.languages[r],r)),l&&e.close()}),!1),a):a;var g=a.util.currentScript();function f(){a.manual||a.highlightAll()}if(g&&(a.filename=g.src,g.hasAttribute("data-manual")&&(a.manual=!0)),!a.manual){var h=document.readyState;"loading"===h||"interactive"===h&&g&&g.defer?document.addEventListener("DOMContentLoaded",f):window.requestAnimationFrame?window.requestAnimationFrame(f):window.setTimeout(f,16)}return a}(_self);"undefined"!=typeof module&&module.exports&&(module.exports=Prism),"undefined"!=typeof global&&(global.Prism=Prism);
+Prism.languages.markup={comment:{pattern:/<!--(?:(?!<!--)[\s\S])*?-->/,greedy:!0},prolog:{pattern:/<\?[\s\S]+?\?>/,greedy:!0},doctype:{pattern:/<!DOCTYPE(?:[^>"'[\]]|"[^"]*"|'[^']*')+(?:\[(?:[^<"'\]]|"[^"]*"|'[^']*'|<(?!!--)|<!--(?:[^-]|-(?!->))*-->)*\]\s*)?>/i,greedy:!0,inside:{"internal-subset":{pattern:/(^[^\[]*\[)[\s\S]+(?=\]>$)/,lookbehind:!0,greedy:!0,inside:null},string:{pattern:/"[^"]*"|'[^']*'/,greedy:!0},punctuation:/^<!|>$|[[\]]/,"doctype-tag":/^DOCTYPE/i,name:/[^\s<>'"]+/}},cdata:{pattern:/<!\[CDATA\[[\s\S]*?\]\]>/i,greedy:!0},tag:{pattern:/<\/?(?!\d)[^\s>\/=$<%]+(?:\s(?:\s*[^\s>\/=]+(?:\s*=\s*(?:"[^"]*"|'[^']*'|[^\s'">=]+(?=[\s>]))|(?=[\s/>])))+)?\s*\/?>/,greedy:!0,inside:{tag:{pattern:/^<\/?[^\s>\/]+/,inside:{punctuation:/^<\/?/,namespace:/^[^\s>\/:]+:/}},"special-attr":[],"attr-value":{pattern:/=\s*(?:"[^"]*"|'[^']*'|[^\s'">=]+)/,inside:{punctuation:[{pattern:/^=/,alias:"attr-equals"},{pattern:/^(\s*)["']|["']$/,lookbehind:!0}]}},punctuation:/\/?>/,"attr-name":{pattern:/[^\s>\/]+/,inside:{namespace:/^[^\s>\/:]+:/}}}},entity:[{pattern:/&[\da-z]{1,8};/i,alias:"named-entity"},/&#x?[\da-f]{1,8};/i]},Prism.languages.markup.tag.inside["attr-value"].inside.entity=Prism.languages.markup.entity,Prism.languages.markup.doctype.inside["internal-subset"].inside=Prism.languages.markup,Prism.hooks.add("wrap",(function(a){"entity"===a.type&&(a.attributes.title=a.content.replace(/&amp;/,"&"))})),Object.defineProperty(Prism.languages.markup.tag,"addInlined",{value:function(a,e){var s={};s["language-"+e]={pattern:/(^<!\[CDATA\[)[\s\S]+?(?=\]\]>$)/i,lookbehind:!0,inside:Prism.languages[e]},s.cdata=/^<!\[CDATA\[|\]\]>$/i;var t={"included-cdata":{pattern:/<!\[CDATA\[[\s\S]*?\]\]>/i,inside:s}};t["language-"+e]={pattern:/[\s\S]+/,inside:Prism.languages[e]};var n={};n[a]={pattern:RegExp("(<__[^>]*>)(?:<!\\[CDATA\\[(?:[^\\]]|\\](?!\\]>))*\\]\\]>|(?!<!\\[CDATA\\[)[^])*?(?=</__>)".replace(/__/g,(function(){return a})),"i"),lookbehind:!0,greedy:!0,inside:t},Prism.languages.insertBefore("markup","cdata",n)}}),Object.defineProperty(Prism.languages.markup.tag,"addAttribute",{value:function(a,e){Prism.languages.markup.tag.inside["special-attr"].push({pattern:RegExp("(^|[\"'\\s])(?:"+a+")\\s*=\\s*(?:\"[^\"]*\"|'[^']*'|[^\\s'\">=]+(?=[\\s>]))","i"),lookbehind:!0,inside:{"attr-name":/^[^\s=]+/,"attr-value":{pattern:/=[\s\S]+/,inside:{value:{pattern:/(^=\s*(["']|(?!["'])))\S[\s\S]*(?=\2$)/,lookbehind:!0,alias:[e,"language-"+e],inside:Prism.languages[e]},punctuation:[{pattern:/^=/,alias:"attr-equals"},/"|'/]}}}})}}),Prism.languages.html=Prism.languages.markup,Prism.languages.mathml=Prism.languages.markup,Prism.languages.svg=Prism.languages.markup,Prism.languages.xml=Prism.languages.extend("markup",{}),Prism.languages.ssml=Prism.languages.xml,Prism.languages.atom=Prism.languages.xml,Prism.languages.rss=Prism.languages.xml;
+!function(s){var e=/(?:"(?:\\(?:\r\n|[\s\S])|[^"\\\r\n])*"|'(?:\\(?:\r\n|[\s\S])|[^'\\\r\n])*')/;s.languages.css={comment:/\/\*[\s\S]*?\*\//,atrule:{pattern:RegExp("@[\\w-](?:[^;{\\s\"']|\\s+(?!\\s)|"+e.source+")*?(?:;|(?=\\s*\\{))"),inside:{rule:/^@[\w-]+/,"selector-function-argument":{pattern:/(\bselector\s*\(\s*(?![\s)]))(?:[^()\s]|\s+(?![\s)])|\((?:[^()]|\([^()]*\))*\))+(?=\s*\))/,lookbehind:!0,alias:"selector"},keyword:{pattern:/(^|[^\w-])(?:and|not|only|or)(?![\w-])/,lookbehind:!0}}},url:{pattern:RegExp("\\burl\\((?:"+e.source+"|(?:[^\\\\\r\n()\"']|\\\\[^])*)\\)","i"),greedy:!0,inside:{function:/^url/i,punctuation:/^\(|\)$/,string:{pattern:RegExp("^"+e.source+"$"),alias:"url"}}},selector:{pattern:RegExp("(^|[{}\\s])[^{}\\s](?:[^{};\"'\\s]|\\s+(?![\\s{])|"+e.source+")*(?=\\s*\\{)"),lookbehind:!0},string:{pattern:e,greedy:!0},property:{pattern:/(^|[^-\w\xA0-\uFFFF])(?!\s)[-_a-z\xA0-\uFFFF](?:(?!\s)[-\w\xA0-\uFFFF])*(?=\s*:)/i,lookbehind:!0},important:/!important\b/i,function:{pattern:/(^|[^-a-z0-9])[-a-z0-9]+(?=\()/i,lookbehind:!0},punctuation:/[(){};:,]/},s.languages.css.atrule.inside.rest=s.languages.css;var t=s.languages.markup;t&&(t.tag.addInlined("style","css"),t.tag.addAttribute("style","css"))}(Prism);
+Prism.languages.clike={comment:[{pattern:/(^|[^\\])\/\*[\s\S]*?(?:\*\/|$)/,lookbehind:!0,greedy:!0},{pattern:/(^|[^\\:])\/\/.*/,lookbehind:!0,greedy:!0}],string:{pattern:/(["'])(?:\\(?:\r\n|[\s\S])|(?!\1)[^\\\r\n])*\1/,greedy:!0},"class-name":{pattern:/(\b(?:class|extends|implements|instanceof|interface|new|trait)\s+|\bcatch\s+\()[\w.\\]+/i,lookbehind:!0,inside:{punctuation:/[.\\]/}},keyword:/\b(?:break|catch|continue|do|else|finally|for|function|if|in|instanceof|new|null|return|throw|try|while)\b/,boolean:/\b(?:false|true)\b/,function:/\b\w+(?=\()/,number:/\b0x[\da-f]+\b|(?:\b\d+(?:\.\d*)?|\B\.\d+)(?:e[+-]?\d+)?/i,operator:/[<>]=?|[!=]=?=?|--?|\+\+?|&&?|\|\|?|[?*/~^%]/,punctuation:/[{}[\];(),.:]/};
+Prism.languages.javascript=Prism.languages.extend("clike",{"class-name":[Prism.languages.clike["class-name"],{pattern:/(^|[^$\w\xA0-\uFFFF])(?!\s)[_$A-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\.(?:constructor|prototype))/,lookbehind:!0}],keyword:[{pattern:/((?:^|\})\s*)catch\b/,lookbehind:!0},{pattern:/(^|[^.]|\.\.\.\s*)\b(?:as|assert(?=\s*\{)|async(?=\s*(?:function\b|\(|[$\w\xA0-\uFFFF]|$))|await|break|case|class|const|continue|debugger|default|delete|do|else|enum|export|extends|finally(?=\s*(?:\{|$))|for|from(?=\s*(?:['"]|$))|function|(?:get|set)(?=\s*(?:[#\[$\w\xA0-\uFFFF]|$))|if|implements|import|in|instanceof|interface|let|new|null|of|package|private|protected|public|return|static|super|switch|this|throw|try|typeof|undefined|var|void|while|with|yield)\b/,lookbehind:!0}],function:/#?(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*(?:\.\s*(?:apply|bind|call)\s*)?\()/,number:{pattern:RegExp("(^|[^\\w$])(?:NaN|Infinity|0[bB][01]+(?:_[01]+)*n?|0[oO][0-7]+(?:_[0-7]+)*n?|0[xX][\\dA-Fa-f]+(?:_[\\dA-Fa-f]+)*n?|\\d+(?:_\\d+)*n|(?:\\d+(?:_\\d+)*(?:\\.(?:\\d+(?:_\\d+)*)?)?|\\.\\d+(?:_\\d+)*)(?:[Ee][+-]?\\d+(?:_\\d+)*)?)(?![\\w$])"),lookbehind:!0},operator:/--|\+\+|\*\*=?|=>|&&=?|\|\|=?|[!=]==|<<=?|>>>?=?|[-+*/%&|^!=<>]=?|\.{3}|\?\?=?|\?\.?|[~:]/}),Prism.languages.javascript["class-name"][0].pattern=/(\b(?:class|extends|implements|instanceof|interface|new)\s+)[\w.\\]+/,Prism.languages.insertBefore("javascript","keyword",{regex:{pattern:RegExp("((?:^|[^$\\w\\xA0-\\uFFFF.\"'\\])\\s]|\\b(?:return|yield))\\s*)/(?:(?:\\[(?:[^\\]\\\\\r\n]|\\\\.)*\\]|\\\\.|[^/\\\\\\[\r\n])+/[dgimyus]{0,7}|(?:\\[(?:[^[\\]\\\\\r\n]|\\\\.|\\[(?:[^[\\]\\\\\r\n]|\\\\.|\\[(?:[^[\\]\\\\\r\n]|\\\\.)*\\])*\\])*\\]|\\\\.|[^/\\\\\\[\r\n])+/[dgimyus]{0,7}v[dgimyus]{0,7})(?=(?:\\s|/\\*(?:[^*]|\\*(?!/))*\\*/)*(?:$|[\r\n,.;:})\\]]|//))"),lookbehind:!0,greedy:!0,inside:{"regex-source":{pattern:/^(\/)[\s\S]+(?=\/[a-z]*$)/,lookbehind:!0,alias:"language-regex",inside:Prism.languages.regex},"regex-delimiter":/^\/|\/$/,"regex-flags":/^[a-z]+$/}},"function-variable":{pattern:/#?(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*[=:]\s*(?:async\s*)?(?:\bfunction\b|(?:\((?:[^()]|\([^()]*\))*\)|(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*)\s*=>))/,alias:"function"},parameter:[{pattern:/(function(?:\s+(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*)?\s*\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\))/,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/(^|[^$\w\xA0-\uFFFF])(?!\s)[_$a-z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*=>)/i,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/(\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\)\s*=>)/,lookbehind:!0,inside:Prism.languages.javascript},{pattern:/((?:\b|\s|^)(?!(?:as|async|await|break|case|catch|class|const|continue|debugger|default|delete|do|else|enum|export|extends|finally|for|from|function|get|if|implements|import|in|instanceof|interface|let|new|null|of|package|private|protected|public|return|set|static|super|switch|this|throw|try|typeof|undefined|var|void|while|with|yield)(?![$\w\xA0-\uFFFF]))(?:(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*\s*)\(\s*|\]\s*\(\s*)(?!\s)(?:[^()\s]|\s+(?![\s)])|\([^()]*\))+(?=\s*\)\s*\{)/,lookbehind:!0,inside:Prism.languages.javascript}],constant:/\b[A-Z](?:[A-Z_]|\dx?)*\b/}),Prism.languages.insertBefore("javascript","string",{hashbang:{pattern:/^#!.*/,greedy:!0,alias:"comment"},"template-string":{pattern:/`(?:\\[\s\S]|\$\{(?:[^{}]|\{(?:[^{}]|\{[^}]*\})*\})+\}|(?!\$\{)[^\\`])*`/,greedy:!0,inside:{"template-punctuation":{pattern:/^`|`$/,alias:"string"},interpolation:{pattern:/((?:^|[^\\])(?:\\{2})*)\$\{(?:[^{}]|\{(?:[^{}]|\{[^}]*\})*\})+\}/,lookbehind:!0,inside:{"interpolation-punctuation":{pattern:/^\$\{|\}$/,alias:"punctuation"},rest:Prism.languages.javascript}},string:/[\s\S]+/}},"string-property":{pattern:/((?:^|[,{])[ \t]*)(["'])(?:\\(?:\r\n|[\s\S])|(?!\2)[^\\\r\n])*\2(?=\s*:)/m,lookbehind:!0,greedy:!0,alias:"property"}}),Prism.languages.insertBefore("javascript","operator",{"literal-property":{pattern:/((?:^|[,{])[ \t]*)(?!\s)[_$a-zA-Z\xA0-\uFFFF](?:(?!\s)[$\w\xA0-\uFFFF])*(?=\s*:)/m,lookbehind:!0,alias:"property"}}),Prism.languages.markup&&(Prism.languages.markup.tag.addInlined("script","javascript"),Prism.languages.markup.tag.addAttribute("on(?:abort|blur|change|click|composition(?:end|start|update)|dblclick|error|focus(?:in|out)?|key(?:down|up)|load|mouse(?:down|enter|leave|move|out|over|up)|reset|resize|scroll|select|slotchange|submit|unload|wheel)","javascript")),Prism.languages.js=Prism.languages.javascript;
+!function(e){var n=/\b(?:abstract|assert|boolean|break|byte|case|catch|char|class|const|continue|default|do|double|else|enum|exports|extends|final|finally|float|for|goto|if|implements|import|instanceof|int|interface|long|module|native|new|non-sealed|null|open|opens|package|permits|private|protected|provides|public|record(?!\s*[(){}[\]<>=%~.:,;?+\-*/&|^])|requires|return|sealed|short|static|strictfp|super|switch|synchronized|this|throw|throws|to|transient|transitive|try|uses|var|void|volatile|while|with|yield)\b/,t="(?:[a-z]\\w*\\s*\\.\\s*)*(?:[A-Z]\\w*\\s*\\.\\s*)*",s={pattern:RegExp("(^|[^\\w.])"+t+"[A-Z](?:[\\d_A-Z]*[a-z]\\w*)?\\b"),lookbehind:!0,inside:{namespace:{pattern:/^[a-z]\w*(?:\s*\.\s*[a-z]\w*)*(?:\s*\.)?/,inside:{punctuation:/\./}},punctuation:/\./}};e.languages.java=e.languages.extend("clike",{string:{pattern:/(^|[^\\])"(?:\\.|[^"\\\r\n])*"/,lookbehind:!0,greedy:!0},"class-name":[s,{pattern:RegExp("(^|[^\\w.])"+t+"[A-Z]\\w*(?=\\s+\\w+\\s*[;,=()]|\\s*(?:\\[[\\s,]*\\]\\s*)?::\\s*new\\b)"),lookbehind:!0,inside:s.inside},{pattern:RegExp("(\\b(?:class|enum|extends|implements|instanceof|interface|new|record|throws)\\s+)"+t+"[A-Z]\\w*\\b"),lookbehind:!0,inside:s.inside}],keyword:n,function:[e.languages.clike.function,{pattern:/(::\s*)[a-z_]\w*/,lookbehind:!0}],number:/\b0b[01][01_]*L?\b|\b0x(?:\.[\da-f_p+-]+|[\da-f_]+(?:\.[\da-f_p+-]+)?)\b|(?:\b\d[\d_]*(?:\.[\d_]*)?|\B\.\d[\d_]*)(?:e[+-]?\d[\d_]*)?[dfl]?/i,operator:{pattern:/(^|[^.])(?:<<=?|>>>?=?|->|--|\+\+|&&|\|\||::|[?:~]|[-+*/%&|^!=<>]=?)/m,lookbehind:!0},constant:/\b[A-Z][A-Z_\d]+\b/}),e.languages.insertBefore("java","string",{"triple-quoted-string":{pattern:/"""[ \t]*[\r\n](?:(?:"|"")?(?:\\.|[^"\\]))*"""/,greedy:!0,alias:"string"},char:{pattern:/'(?:\\.|[^'\\\r\n]){1,6}'/,greedy:!0}}),e.languages.insertBefore("java","class-name",{annotation:{pattern:/(^|[^.])@\w+(?:\s*\.\s*\w+)*/,lookbehind:!0,alias:"punctuation"},generics:{pattern:/<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&)|<(?:[\w\s,.?]|&(?!&))*>)*>)*>)*>/,inside:{"class-name":s,keyword:n,punctuation:/[<>(),.:]/,operator:/[?&|]/}},import:[{pattern:RegExp("(\\bimport\\s+)"+t+"(?:[A-Z]\\w*|\\*)(?=\\s*;)"),lookbehind:!0,inside:{namespace:s.inside.namespace,punctuation:/\./,operator:/\*/,"class-name":/\w+/}},{pattern:RegExp("(\\bimport\\s+static\\s+)"+t+"(?:\\w+|\\*)(?=\\s*;)"),lookbehind:!0,alias:"static",inside:{namespace:s.inside.namespace,static:/\b\w+$/,punctuation:/\./,operator:/\*/,"class-name":/\w+/}}],namespace:{pattern:RegExp("(\\b(?:exports|import(?:\\s+static)?|module|open|opens|package|provides|requires|to|transitive|uses|with)\\s+)(?!<keyword>)[a-z]\\w*(?:\\.[a-z]\\w*)*\\.?".replace(/<keyword>/g,(function(){return n.source}))),lookbehind:!0,inside:{punctuation:/\./}}})}(Prism);
+!function(a){var e=a.languages.javadoclike={parameter:{pattern:/(^[\t ]*(?:\/{3}|\*|\/\*\*)\s*@(?:arg|arguments|param)\s+)\w+/m,lookbehind:!0},keyword:{pattern:/(^[\t ]*(?:\/{3}|\*|\/\*\*)\s*|\{)@[a-z][a-zA-Z-]+\b/m,lookbehind:!0},punctuation:/[{}]/};Object.defineProperty(e,"addSupport",{value:function(e,n){"string"==typeof e&&(e=[e]),e.forEach((function(e){!function(e,n){var t="doc-comment",r=a.languages[e];if(r){var o=r[t];if(o||(o=(r=a.languages.insertBefore(e,"comment",{"doc-comment":{pattern:/(^|[^\\])\/\*\*[^/][\s\S]*?(?:\*\/|$)/,lookbehind:!0,alias:"comment"}}))[t]),o instanceof RegExp&&(o=r[t]={pattern:o}),Array.isArray(o))for(var i=0,s=o.length;i<s;i++)o[i]instanceof RegExp&&(o[i]={pattern:o[i]}),n(o[i]);else n(o)}}(e,(function(a){a.inside||(a.inside={}),a.inside.rest=n}))}))}}),e.addSupport(["java","javascript","php"],e)}(Prism);
+!function(a){var e=/(^(?:[\t ]*(?:\*\s*)*))[^*\s].*$/m,n="(?:\\b[a-zA-Z]\\w+\\s*\\.\\s*)*\\b[A-Z]\\w*(?:\\s*<mem>)?|<mem>".replace(/<mem>/g,(function(){return"#\\s*\\w+(?:\\s*\\([^()]*\\))?"}));a.languages.javadoc=a.languages.extend("javadoclike",{}),a.languages.insertBefore("javadoc","keyword",{reference:{pattern:RegExp("(@(?:exception|link|linkplain|see|throws|value)\\s+(?:\\*\\s*)?)(?:"+n+")"),lookbehind:!0,inside:{function:{pattern:/(#\s*)\w+(?=\s*\()/,lookbehind:!0},field:{pattern:/(#\s*)\w+/,lookbehind:!0},namespace:{pattern:/\b(?:[a-z]\w*\s*\.\s*)+/,inside:{punctuation:/\./}},"class-name":/\b[A-Z]\w*/,keyword:a.languages.java.keyword,punctuation:/[#()[\],.]/}},"class-name":{pattern:/(@param\s+)<[A-Z]\w*>/,lookbehind:!0,inside:{punctuation:/[.<>]/}},"code-section":[{pattern:/(\{@code\s+(?!\s))(?:[^\s{}]|\s+(?![\s}])|\{(?:[^{}]|\{(?:[^{}]|\{(?:[^{}]|\{[^{}]*\})*\})*\})*\})+(?=\s*\})/,lookbehind:!0,inside:{code:{pattern:e,lookbehind:!0,inside:a.languages.java,alias:"language-java"}}},{pattern:/(<(code|pre|tt)>(?!<code>)\s*)\S(?:\S|\s+\S)*?(?=\s*<\/\2>)/,lookbehind:!0,inside:{line:{pattern:e,lookbehind:!0,inside:{tag:a.languages.markup.tag,entity:a.languages.markup.entity,code:{pattern:/.+/,inside:a.languages.java,alias:"language-java"}}}}}],tag:a.languages.markup.tag,entity:a.languages.markup.entity}),a.languages.javadoclike.addSupport("java",a.languages.javadoc)}(Prism);
+!function(n){n.languages.kotlin=n.languages.extend("clike",{keyword:{pattern:/(^|[^.])\b(?:abstract|actual|annotation|as|break|by|catch|class|companion|const|constructor|continue|crossinline|data|do|dynamic|else|enum|expect|external|final|finally|for|fun|get|if|import|in|infix|init|inline|inner|interface|internal|is|lateinit|noinline|null|object|open|operator|out|override|package|private|protected|public|reified|return|sealed|set|super|suspend|tailrec|this|throw|to|try|typealias|val|var|vararg|when|where|while)\b/,lookbehind:!0},function:[{pattern:/(?:`[^\r\n`]+`|\b\w+)(?=\s*\()/,greedy:!0},{pattern:/(\.)(?:`[^\r\n`]+`|\w+)(?=\s*\{)/,lookbehind:!0,greedy:!0}],number:/\b(?:0[xX][\da-fA-F]+(?:_[\da-fA-F]+)*|0[bB][01]+(?:_[01]+)*|\d+(?:_\d+)*(?:\.\d+(?:_\d+)*)?(?:[eE][+-]?\d+(?:_\d+)*)?[fFL]?)\b/,operator:/\+[+=]?|-[-=>]?|==?=?|!(?:!|==?)?|[\/*%<>]=?|[?:]:?|\.\.|&&|\|\||\b(?:and|inv|or|shl|shr|ushr|xor)\b/}),delete n.languages.kotlin["class-name"];var e={"interpolation-punctuation":{pattern:/^\$\{?|\}$/,alias:"punctuation"},expression:{pattern:/[\s\S]+/,inside:n.languages.kotlin}};n.languages.insertBefore("kotlin","string",{"string-literal":[{pattern:/"""(?:[^$]|\$(?:(?!\{)|\{[^{}]*\}))*?"""/,alias:"multiline",inside:{interpolation:{pattern:/\$(?:[a-z_]\w*|\{[^{}]*\})/i,inside:e},string:/[\s\S]+/}},{pattern:/"(?:[^"\\\r\n$]|\\.|\$(?:(?!\{)|\{[^{}]*\}))*"/,alias:"singleline",inside:{interpolation:{pattern:/((?:^|[^\\])(?:\\{2})*)\$(?:[a-z_]\w*|\{[^{}]*\})/i,lookbehind:!0,inside:e},string:/[\s\S]+/}}],char:{pattern:/'(?:[^'\\\r\n]|\\(?:.|u[a-fA-F0-9]{0,4}))'/,greedy:!0}}),delete n.languages.kotlin.string,n.languages.insertBefore("kotlin","keyword",{annotation:{pattern:/\B@(?:\w+:)?(?:[A-Z]\w*|\[[^\]]+\])/,alias:"builtin"}}),n.languages.insertBefore("kotlin","function",{label:{pattern:/\b\w+@|@\w+\b/,alias:"symbol"}}),n.languages.kt=n.languages.kotlin,n.languages.kts=n.languages.kotlin}(Prism);
+"undefined"!=typeof Prism&&"undefined"!=typeof document&&document.createRange&&(Prism.plugins.KeepMarkup=!0,Prism.hooks.add("before-highlight",(function(e){if(e.element.children.length&&Prism.util.isActive(e.element,"keep-markup",!0)){var n=Prism.util.isActive(e.element,"drop-tokens",!1),t=0,o=[];r(e.element),o.length&&(e.keepMarkup=o)}function d(e){if(function(e){return!n||"span"!==e.nodeName.toLowerCase()||!e.classList.contains("token")}(e)){var d={element:e,posOpen:t};o.push(d),r(e),d.posClose=t}else r(e)}function r(e){for(var n=0,o=e.childNodes.length;n<o;n++){var r=e.childNodes[n];1===r.nodeType?d(r):3===r.nodeType&&(t+=r.data.length)}}})),Prism.hooks.add("after-highlight",(function(e){if(e.keepMarkup&&e.keepMarkup.length){var n=function(e,t){for(var o=0,d=e.childNodes.length;o<d;o++){var r=e.childNodes[o];if(1===r.nodeType){if(!n(r,t))return!1}else 3===r.nodeType&&(!t.nodeStart&&t.pos+r.data.length>t.node.posOpen&&(t.nodeStart=r,t.nodeStartPos=t.node.posOpen-t.pos),t.nodeStart&&t.pos+r.data.length>=t.node.posClose&&(t.nodeEnd=r,t.nodeEndPos=t.node.posClose-t.pos),t.pos+=r.data.length);if(t.nodeStart&&t.nodeEnd){var s=document.createRange();return s.setStart(t.nodeStart,t.nodeStartPos),s.setEnd(t.nodeEnd,t.nodeEndPos),t.node.element.innerHTML="",t.node.element.appendChild(s.extractContents()),s.insertNode(t.node.element),s.detach(),!1}}return!0};e.keepMarkup.forEach((function(t){n(e.element,{node:t,pos:0})})),e.highlightedCode=e.element.innerHTML}})));
+
+/*
+ * This is NOT part of the prism.js main script, it's specific to Dokka.
+ * Dokka generates <br> tags for new lines inside <pre> blocks and it works visually,
+ * but it causes prism.js to incorrectly parse some tags (such as inline comments)
+ *
+ * This can be removed if there are no `<br>` tags inside `<pre>` anymore, but
+ * if there still are - DO NOT remove this hook when upading prism.js to a newer version
+ */
+Prism.hooks.add('before-sanity-check', function (env){env.element.innerHTML = env.element.innerHTML.replace(/<br>/g, '\n');env.code = env.element.textContent;});
diff --git a/docs/dokka/v0.2.0/scripts/sourceset_dependencies.js b/docs/dokka/v0.2.0/scripts/sourceset_dependencies.js
new file mode 100644
index 00000000..b3aa7385
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/sourceset_dependencies.js
@@ -0,0 +1 @@
+sourceset_dependencies='{":dokkaHtml/main":[]}'
diff --git a/docs/dokka/v0.2.0/scripts/symbol-parameters-wrapper_deferred.js b/docs/dokka/v0.2.0/scripts/symbol-parameters-wrapper_deferred.js
new file mode 100644
index 00000000..7ecae7a6
--- /dev/null
+++ b/docs/dokka/v0.2.0/scripts/symbol-parameters-wrapper_deferred.js
@@ -0,0 +1,64 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+// helps with some corner cases where <wbr> starts working already,
+// but the signature is not yet long enough to be wrapped
+(function() {
+    const leftPaddingPx = 60;
+
+    function createNbspIndent() {
+        let indent = document.createElement("span");
+        indent.append(document.createTextNode("\u00A0\u00A0\u00A0\u00A0"));
+        indent.classList.add("nbsp-indent");
+        return indent;
+    }
+
+    function wrapSymbolParameters(entry) {
+        const symbol = entry.target;
+        const symbolBlockWidth = entry.borderBoxSize && entry.borderBoxSize[0] && entry.borderBoxSize[0].inlineSize;
+
+        // Even though the script is marked as `defer` and we wait for `DOMContentLoaded` event,
+        // or if this block is a part of hidden tab, it can happen that `symbolBlockWidth` is 0,
+        // indicating that something hasn't been loaded.
+        // In this case, observer will be triggered onсe again when it will be ready.
+        if (symbolBlockWidth > 0) {
+            const node = symbol.querySelector(".parameters");
+
+            if (node) {
+                // if window resize happened and observer was triggered, reset previously wrapped
+                // parameters as they might not need wrapping anymore, and check again
+                node.classList.remove("wrapped");
+                node.querySelectorAll(".parameter .nbsp-indent")
+                    .forEach(indent => indent.remove());
+
+                const innerTextWidth = Array.from(symbol.children)
+                    .filter(it => !it.classList.contains("block")) // blocks are usually on their own (like annotations), so ignore it
+                    .map(it => it.getBoundingClientRect().width)
+                    .reduce((a, b) => a + b, 0);
+
+                // if signature text takes up more than a single line, wrap params for readability
+                if (innerTextWidth > (symbolBlockWidth - leftPaddingPx)) {
+                    node.classList.add("wrapped");
+                    node.querySelectorAll(".parameter").forEach(param => {
+                        // has to be a physical indent so that it can be copied. styles like
+                        // paddings and `::before { content: "    " }` do not work for that
+                        param.prepend(createNbspIndent());
+                    });
+                }
+            }
+        }
+    }
+
+    const symbolsObserver = new ResizeObserver(entries => entries.forEach(wrapSymbolParameters));
+
+    function initHandlers() {
+        document.querySelectorAll("div.symbol").forEach(symbol => symbolsObserver.observe(symbol));
+    }
+
+    if (document.readyState === 'loading') window.addEventListener('DOMContentLoaded', initHandlers);
+    else initHandlers();
+
+    // ToDo: Add `unobserve` if dokka will be SPA-like:
+    //       https://github.com/w3c/csswg-drafts/issues/5155
+})();
diff --git a/docs/dokka/v0.2.0/styles/font-jb-sans-auto.css b/docs/dokka/v0.2.0/styles/font-jb-sans-auto.css
new file mode 100644
index 00000000..bdc68723
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/font-jb-sans-auto.css
@@ -0,0 +1,36 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+/* Light weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Light.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Light.woff') format('woff');
+    font-weight: 300;
+    font-style: normal;
+}
+/* Regular weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Regular.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-Regular.woff') format('woff');
+    font-weight: 400;
+    font-style: normal;
+}
+/* SemiBold weight */
+@font-face {
+    font-family: 'JetBrains Sans';
+    src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-SemiBold.woff2') format('woff2'), url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans-SemiBold.woff') format('woff');
+    font-weight: 600;
+    font-style: normal;
+}
+
+@supports (font-variation-settings: normal) {
+    @font-face {
+        font-family: 'JetBrains Sans';
+        src: url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff2') format('woff2 supports variations'),
+        url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff2') format('woff2-variations'),
+        url('https://resources.jetbrains.com/storage/jetbrains-sans/JetBrainsSans.woff') format('woff-variations');
+        font-weight: 100 900;
+        font-style: normal;
+    }
+}
diff --git a/docs/dokka/v0.2.0/styles/logo-styles.css b/docs/dokka/v0.2.0/styles/logo-styles.css
new file mode 100644
index 00000000..69804e46
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/logo-styles.css
@@ -0,0 +1,9 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+:root {
+    --dokka-logo-image-url: url('../images/logo-icon.svg');
+    --dokka-logo-height: 50px;
+    --dokka-logo-width: 50px;
+}
diff --git a/docs/dokka/v0.2.0/styles/main.css b/docs/dokka/v0.2.0/styles/main.css
new file mode 100644
index 00000000..5f7781ec
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/main.css
@@ -0,0 +1,124 @@
+/*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */#pages-search{cursor:pointer;border:none;border-radius:50%;background:transparent;fill:#fff;fill:var(--dark-mode-and-search-icon-color)}#pages-search:hover{background:var(--white-10)}.search,.search [data-test=ring-select],.search [data-test=ring-tooltip],.search [data-test=ring-select_focus],.search #pages-search{display:inline-block;padding:0;margin:0;font-size:0;line-height:0}.search-hotkey-popup{background-color:var(--background-color) !important;padding:4px}.popup-wrapper{min-width:calc(100% - 322px) !important;border:1px solid rgba(255,255,255,.2) !important;background-color:#27282c !important;color:rgba(255,255,255,.8)}.popup-wrapper [class^=filterWrapper]{border-bottom:1px solid rgba(255,255,255,.2)}.popup-wrapper input{color:rgba(255,255,255,.8) !important;font-weight:normal !important}.popup-wrapper span[data-test-custom=ring-select-popup-filter-icon]{color:#fff}.popup-wrapper button[data-test=ring-input-clear]{color:#fff !important}@media screen and (max-width: 759px){.popup-wrapper{min-width:100% !important}}.template-wrapper{display:grid;height:32px;grid-template-columns:auto auto}.template-wrapper strong{color:rgba(255,255,255,.8)}.template-wrapper span{color:rgba(255,255,255,.8);line-height:32px}.template-wrapper span.template-description{color:rgba(255,255,255,.6);justify-self:end}@media screen and (max-width: 759px){.template-wrapper{display:flex;flex-direction:column;height:auto}.template-wrapper span{line-height:unset}}.template-name{justify-self:start}[class^=fade]{display:none}[class*=hover]{background-color:rgba(255,255,255,.1) !important}
+/* stylelint-disable color-no-hex */
+
+:root {
+  --ring-unit: 8px;
+
+  /* Element */
+  --ring-line-color: #dfe5eb;
+  --ring-dark-line-color: #475159;
+  --ring-borders-color: #b8d1e5;
+  --ring-dark-borders-color: #406380;
+  --ring-icon-color: var(--ring-borders-color);
+  --ring-icon-secondary-color: #999;
+  --ring-border-disabled-color: #dbdbdb;
+  --ring-icon-disabled-color: #bbb;
+  --ring-border-hover-color: #80c6ff;
+  --ring-dark-border-hover-color: #70b1e6;
+  --ring-icon-hover-color: var(--ring-link-hover-color);
+  --ring-main-color: #008eff;
+  --ring-main-hover-color: #007ee5;
+  --ring-icon-error-color: #db5860;
+  --ring-icon-warning-color: #eda200;
+  --ring-icon-success-color: #59a869;
+  --ring-pale-control-color: #cfdbe5;
+  --ring-popup-border-components: 0, 42, 76;
+  --ring-popup-border-color: rgba(var(--ring-popup-border-components), 0.1);
+  --ring-popup-shadow-color: rgba(var(--ring-popup-border-components), 0.15);
+  --ring-message-shadow-color: rgba(var(--ring-popup-border-components), 0.3);
+  --ring-pinned-shadow-color: #737577;
+
+  /* Text */
+  --ring-search-color: #669ecc;
+  --ring-hint-color: #406380;
+  --ring-link-color: #0f5b99;
+  --ring-link-hover-color: #ff008c;
+  --ring-error-color: #c22731;
+  --ring-warning-color: #cc8b00;
+  --ring-success-color: #1b8833;
+  --ring-text-color: #1f2326;
+  --ring-dark-text-color: #fff;
+  --ring-heading-color: var(--ring-text-color);
+  --ring-secondary-color: #737577;
+  --ring-dark-secondary-color: #888;
+  --ring-disabled-color: #999;
+  --ring-dark-disabled-color: #444;
+  --ring-dark-active-color: #ccc;
+
+  /* Background */
+  --ring-content-background-color: #fff;
+  --ring-popup-background-color: #fff;
+  --ring-sidebar-background-color: #f7f9fa;
+  --ring-selected-background-color: #d4edff;
+  --ring-hover-background-color: #ebf6ff;
+  --ring-dark-selected-background-color: #002a4d;
+  --ring-message-background-color: #111314;
+  --ring-navigation-background-color: #000;
+  --ring-tag-background-color: #e6ecf2;
+  --ring-removed-background-color: #ffd5cb;
+  --ring-warning-background-color: #faeccd;
+  --ring-added-background-color: #bce8bb;
+
+  /* Code */
+  --ring-code-background-color: var(--ring-content-background-color);
+  --ring-code-color: #000;
+  --ring-code-comment-color: #707070;
+  --ring-code-meta-color: #707070;
+  --ring-code-keyword-color: #000080;
+  --ring-code-tag-background-color: #efefef;
+  --ring-code-tag-color: var(--ring-code-keyword-color);
+  --ring-code-tag-font-weight: bold;
+  --ring-code-field-color: #660e7a;
+  --ring-code-attribute-color: #00f;
+  --ring-code-number-color: var(--ring-code-attribute-color);
+  --ring-code-string-color: #007a00;
+  --ring-code-addition-color: #aadeaa;
+  --ring-code-deletion-color: #c8c8c8;
+
+  /* Metrics */
+  --ring-border-radius: 3px;
+  --ring-border-radius-small: 2px;
+  --ring-font-size-larger: 14px;
+  --ring-font-size: 13px;
+  --ring-font-size-smaller: 12px;
+  --ring-line-height-taller: 21px;
+  --ring-line-height: 20px;
+  --ring-line-height-lower: 18px;
+  --ring-line-height-lowest: 16px;
+  --ring-ease: 0.3s ease-out;
+  --ring-fast-ease: 0.15s ease-out;
+  --ring-font-family: system-ui, Arial, sans-serif;
+  --ring-font-family-monospace:
+    Menlo,
+    "Bitstream Vera Sans Mono",
+    "Ubuntu Mono",
+    Consolas,
+    "Courier New",
+    Courier,
+    monospace;
+
+  /* Common z-index-values */
+
+  /* Invisible element is an absolutely positioned element which should be below */
+  /* all other elements on the page */
+  --ring-invisible-element-z-index: -1;
+
+  /* z-index for position: fixed elements */
+  --ring-fixed-z-index: 1;
+
+  /* Elements that should overlay all other elements on the page */
+  --ring-overlay-z-index: 5;
+
+  /* Alerts should de displayed above overlays */
+  --ring-alert-z-index: 6;
+}
+
+/*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ *//*!
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */html,.app-root{height:100%}.search-root{margin:0;padding:0;background:var(--ring-content-background-color);font-family:var(--ring-font-family);font-size:var(--ring-font-size);line-height:var(--ring-line-height)}.search-content{z-index:8}
+
+/*# sourceMappingURL=main.css.map*/
\ No newline at end of file
diff --git a/docs/dokka/v0.2.0/styles/multimodule.css b/docs/dokka/v0.2.0/styles/multimodule.css
new file mode 100644
index 00000000..91798c1d
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/multimodule.css
@@ -0,0 +1,55 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+.versions-dropdown {
+  position: relative;
+}
+
+.versions-dropdown-button {
+  display: flex;
+  border: none;
+  cursor: pointer;
+  padding: 5px;
+}
+
+.versions-dropdown-button::after {
+    content: '';
+    -webkit-mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask-size: auto;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: #fff;
+    display: inline-block;
+    transform: rotate(90deg);
+    width: 24px;
+    height: 16px;
+}
+
+.versions-dropdown-data {
+  display: none;
+  position: absolute;
+  background-color: #27282c;
+  border: 1px solid hsla(0, 0%, 100%, .6);
+  box-shadow: 0 8px 16px 0 rgba(0,0,0,0.2);
+  z-index: 1;
+  overflow-y: auto;
+  max-height: 200px;
+  min-width: 50px;
+}
+
+.versions-dropdown-data > a {
+  display: block;
+  padding: 5px;
+  color: #fff;
+  text-decoration: none;
+}
+
+.versions-dropdown-data > a:hover {
+  background-color: hsla(0,0%,100%,.1)
+}
+
+.versions-dropdown:hover .versions-dropdown-data {
+  display: block;
+}
diff --git a/docs/dokka/v0.2.0/styles/prism.css b/docs/dokka/v0.2.0/styles/prism.css
new file mode 100644
index 00000000..2d3a091e
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/prism.css
@@ -0,0 +1,217 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+/*
+ * Custom Dokka styles
+ */
+code .token {
+    white-space: pre;
+}
+
+/**
+ * Styles based on webhelp's prism.js styles
+ * Changes:
+ * - Since webhelp's styles are in .pcss, they use nesting which is not achievable in native CSS
+ *   so nested css blocks have been unrolled (like dark theme).
+ * - Webhelp uses "Custom Class" prism.js plugin, so all of their prism classes are prefixed with "--prism".
+ *   Dokka doesn't seem to need this plugin at the moment, so all "--prism" prefixes have been removed.
+ * - Removed all styles related to `pre` and `code` tags. Kotlinlang's resulting styles are so spread out and complicated
+ *   that it's difficult to gather in one place. Instead use code styles defined in the main Dokka styles,
+ *   which at the moment looks fairly similar.
+ *
+ * Based on prism.js default theme
+ * Based on dabblet (http://dabblet.com)
+ * @author Lea Verou
+ */
+
+.token.comment,
+.token.prolog,
+.token.doctype,
+.token.cdata {
+	color: #8c8c8c;
+}
+
+.token.punctuation {
+	color: #999;
+}
+
+.token.namespace {
+	opacity: 0.7;
+}
+
+.token.property,
+.token.tag,
+.token.boolean,
+.token.number,
+.token.constant,
+.token.symbol,
+.token.deleted {
+	color: #871094;
+}
+
+.token.selector,
+.token.attr-name,
+.token.string,
+.token.char,
+.token.builtin,
+.token.inserted {
+	color: #067d17;
+}
+
+.token.operator,
+.token.entity,
+.token.url,
+.language-css .token.string,
+.style .token.string {
+	color: #9a6e3a;
+	/* This background color was intended by the author of this theme. */
+	background: hsla(0, 0%, 100%, 0.5);
+}
+
+.token.atrule,
+.token.attr-value,
+.token.keyword {
+	font-size: inherit; /* to override .keyword */
+	color: #0033b3;
+}
+
+.token.function {
+	color: #00627a;
+}
+
+.token.class-name {
+	color: #000000;
+}
+
+.token.regex,
+.token.important,
+.token.variable {
+	color: #871094;
+}
+
+.token.important,
+.token.bold {
+	font-weight: bold;
+}
+.token.italic {
+	font-style: italic;
+}
+
+.token.entity {
+	cursor: help;
+}
+
+.token.operator {
+	background: none;
+}
+
+/*
+ * DARK THEME
+ */
+:root.theme-dark .token.comment,
+:root.theme-dark .token.prolog,
+:root.theme-dark .token.cdata {
+	color: #808080;
+}
+
+:root.theme-dark .token.delimiter,
+:root.theme-dark .token.boolean,
+:root.theme-dark .token.keyword,
+:root.theme-dark .token.selector,
+:root.theme-dark .token.important,
+:root.theme-dark .token.atrule {
+	color: #cc7832;
+}
+
+:root.theme-dark .token.operator,
+:root.theme-dark .token.punctuation,
+:root.theme-dark .token.attr-name {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.tag,
+:root.theme-dark .token.tag .punctuation,
+:root.theme-dark .token.doctype,
+:root.theme-dark .token.builtin {
+	color: #e8bf6a;
+}
+
+:root.theme-dark .token.entity,
+:root.theme-dark .token.number,
+:root.theme-dark .token.symbol {
+	color: #6897bb;
+}
+
+:root.theme-dark .token.property,
+:root.theme-dark .token.constant,
+:root.theme-dark .token.variable {
+	color: #9876aa;
+}
+
+:root.theme-dark .token.string,
+:root.theme-dark .token.char {
+	color: #6a8759;
+}
+
+:root.theme-dark .token.attr-value,
+:root.theme-dark .token.attr-value .punctuation {
+	color: #a5c261;
+}
+
+:root.theme-dark .token.attr-value .punctuation:first-child {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.url {
+	text-decoration: underline;
+
+	color: #287bde;
+	background: transparent;
+}
+
+:root.theme-dark .token.function {
+	color: #ffc66d;
+}
+
+:root.theme-dark .token.regex {
+	background: #364135;
+}
+
+:root.theme-dark .token.deleted {
+	background: #484a4a;
+}
+
+:root.theme-dark .token.inserted {
+	background: #294436;
+}
+
+:root.theme-dark .token.class-name {
+	color: #a9b7c6;
+}
+
+:root.theme-dark .token.function {
+	color: #ffc66d;
+}
+
+:root.theme-darkcode .language-css .token.property,
+:root.theme-darkcode .language-css,
+:root.theme-dark .token.property + .token.punctuation {
+	color: #a9b7c6;
+}
+
+code.language-css .token.id {
+	color: #ffc66d;
+}
+
+:root.theme-dark code.language-css .token.selector > .token.class,
+:root.theme-dark code.language-css .token.selector > .token.attribute,
+:root.theme-dark code.language-css .token.selector > .token.pseudo-class,
+:root.theme-dark code.language-css .token.selector > .token.pseudo-element {
+	color: #ffc66d;
+}
+
+:root.theme-dark .language-plaintext .token {
+	/* plaintext code should be colored as article text */
+	color: inherit !important;
+}
diff --git a/docs/dokka/v0.2.0/styles/style.css b/docs/dokka/v0.2.0/styles/style.css
new file mode 100644
index 00000000..fc2b84d2
--- /dev/null
+++ b/docs/dokka/v0.2.0/styles/style.css
@@ -0,0 +1,1509 @@
+/*
+ * Copyright 2014-2023 JetBrains s.r.o. Use of this source code is governed by the Apache 2.0 license.
+ */
+
+@import url('./font-jb-sans-auto.css');
+@import url('https://fonts.googleapis.com/css?family=JetBrains+Mono');
+
+/* --- root styles --- */
+:root {
+    --default-gray: #f4f4f4;
+    --default-font-color: black;
+    --header-font-color: var(--default-font-color);
+
+    --breadcrumb-font-color: #637282;
+    --breadcrumb-margin: 24px;
+    --hover-link-color: #5B5DEF;
+
+    --footer-height: 64px;
+    --footer-padding-top: 48px;
+    --footer-background: var(--default-gray);
+    --footer-font-color: var(--average-color);
+    --footer-go-to-top-color: white;
+
+    --horizontal-spacing-for-content: 16px;
+    --bottom-spacing: 16px;
+    --color-scrollbar: rgba(39, 40, 44, 0.40);
+    --color-scrollbar-track: var(--default-gray);
+    --default-white: #fff;
+    --background-color: var(--default-white);
+    --dark-mode-and-search-icon-color: var(--default-white);
+    --color-dark: #27282c;
+    --default-font-family: JetBrains Sans, Inter, system-ui, -apple-system, BlinkMacSystemFont, Segoe UI,Roboto, Oxygen, Ubuntu,Cantarell, Droid Sans, Helvetica Neue, Arial, sans-serif;
+    --default-monospace-font-family: JetBrains Mono, SFMono-Regular, Consolas, Liberation Mono, Menlo, Courier, monospace;
+    --default-font-size: 15px;
+    --average-color: var(--color-dark);
+    --brief-color: var(--average-color);
+    --copy-icon-color: rgba(39, 40, 44, .7);
+    --copy-icon-hover-color: var(--color-dark);
+    --code-background: rgba(39, 40, 44, .05);
+    --border-color: rgba(39, 40, 44, .2);
+    --navigation-highlight-color: rgba(39, 40, 44, 0.05);
+    --top-navigation-height: 73px;
+    --max-width: 1160px;
+    --white-10: hsla(0, 0%, 100%, .1);
+
+    --active-tab-border-color: #7F52FF;
+    --inactive-tab-border-color: rgba(164, 164, 170, 0.7);
+
+    --active-section-color: #7F52FF;
+    --inactive-section-color: rgba(25, 25, 28, .7);
+
+    --sidebar-width: 280px;
+    --sidemenu-section-active-color: #7F52FF;
+}
+
+html {
+    height: 100%;
+    -webkit-tap-highlight-color: rgba(0, 0, 0, 0);
+    scrollbar-color: rgba(39, 40, 44, 0.40) #F4F4F4;
+    scrollbar-color: var(--color-scrollbar) var(--color-scrollbar-track);
+    text-rendering: optimizeLegibility;
+    -webkit-font-smoothing: antialiased;
+    color: var(--default-font-color);
+}
+
+html ::-webkit-scrollbar {
+    width: 8px;
+    height: 8px;
+}
+
+html ::-webkit-scrollbar-track {
+    background-color: var(--color-scrollbar-track);
+}
+
+html ::-webkit-scrollbar-thumb {
+    width: 8px;
+    border-radius: 6px;
+    background: rgba(39, 40, 44, 0.40);
+    background: var(--color-scrollbar);
+}
+
+html, body {
+    margin: 0;
+    padding: 0;
+    height: 100%;
+    width: 100%;
+}
+/* /--- root styles --- */
+
+/* --- global tags styles --- */
+body, table {
+    background: var(--background-color);
+    font-family: var(--default-font-family);
+    font-style: normal;
+    font-weight: normal;
+    font-size: var(--default-font-size);
+    line-height: 1.6;
+    margin: 0;
+}
+
+h1 {
+    font-size: 40px;
+    line-height: 48px;
+    letter-spacing: -1px;
+}
+
+h2 {
+    font-size: 31px;
+    line-height: 40px;
+    letter-spacing: -0.5px;
+}
+
+h3 {
+    font-size: 20px;
+    line-height: 28px;
+    letter-spacing: -0.2px;
+}
+
+p, ul, ol, table, pre, dl {
+    margin: 0;
+}
+
+a {
+    text-decoration: none;
+}
+
+u {
+    text-decoration: none;
+    padding-bottom: 2px;
+    border-bottom: 1px solid var(--border-color);
+}
+
+blockquote {
+    border-left: 1ch solid var(--default-gray);
+    margin: 0;
+    padding-left: 1ch;
+    font-style: italic;
+    color: var(--average-color);
+}
+
+.theme-dark blockquote {
+    color: var(--default-font-color);
+    border-left-color: var(--code-background);
+}
+
+pre {
+    display: block;
+}
+
+dt {
+    color: #444;
+    font-weight: 530;
+}
+
+img {
+    max-width: 100%;
+}
+
+small {
+    font-size: 11px;
+}
+
+table {
+    width: 100%;
+    border-collapse: collapse;
+    padding: 5px;
+}
+
+th, td {
+    padding: 12px 10px 11px;
+    text-align: left;
+    vertical-align: top;
+}
+
+tbody > tr {
+    min-height: 56px;
+}
+
+td:first-child {
+    width: 20vw;
+}
+/* /---  global tags styles --- */
+
+/* ---  utils classes --- */
+.w-100 {
+    width: 100%;
+}
+
+.no-gutters {
+    margin: 0;
+    padding: 0;
+}
+
+.d-flex {
+    display: flex;
+}
+
+.floating-right {
+    float: right;
+}
+
+.pull-right {
+    float: right;
+    margin-left: auto
+}
+
+.clearfix::after {
+    display: block;
+    content: '';
+    clear: both;
+    height: 0;
+}
+/* /---  utils classes --- */
+
+/* ---dark theme --- */
+.theme-dark {
+    --background-color: #27282c;
+    --color-dark: #3d3d41;
+    --default-font-color: hsla(0, 0%, 100%, 0.8);
+    --border-color: hsla(0, 0%, 100%, 0.2);
+    --code-background: hsla(0, 0%, 100%, 0.05);
+    --breadcrumb-font-color: #8c8c8e;
+    --brief-color: hsla(0, 0%, 100%, 0.4);
+    --copy-icon-color: hsla(0, 0%, 100%, 0.6);
+    --copy-icon-hover-color: #fff;
+
+    --active-tab-border-color: var(--default-font-color);
+    --inactive-tab-border-color: hsla(0, 0%, 100%, 0.4);
+
+    --active-section-color: var(--default-font-color);
+    --inactive-section-color: hsla(0, 0%, 100%, 0.4);
+
+    --navigation-highlight-color: rgba(255, 255, 255, 0.05);
+    --footer-background: hsla(0, 0%, 100%, 0.05);
+    --footer-font-color: hsla(0, 0%, 100%, 0.6);
+    --footer-go-to-top-color: var(--footer-font-color);
+
+    --sidemenu-section-active-color: var(--color-dark);
+}
+/* /---dark theme --- */
+
+.root {
+    display: flex;
+    flex-direction: column;
+    height: 100%;
+}
+
+/* --- Navigation styles --- */
+.navigation {
+    display: flex;
+    justify-content: space-between;
+
+    color: #fff;
+    background-color: var(--color-dark);
+    font-family: var(--default-font-family);
+    letter-spacing: -0.1px;
+
+    /* Reset margin and use padding for border */
+    margin-left: 0;
+    margin-right: 0;
+    padding: 10px var(--horizontal-spacing-for-content);
+
+    z-index: 4;
+}
+
+.navigation--inner {
+    display: flex;
+    flex-wrap: wrap;
+    justify-content: space-between;
+    flex: 1 1 auto;
+}
+
+.navigation--inner, .navigation-title {
+    min-height: 40px;
+}
+
+.navigation-title, .filter-section {
+    align-items: center;
+}
+
+.navigation-title {
+    display: flex;
+    align-items: center;
+}
+
+/* --- Navigation MENU --- */
+.menu-toggle {
+    color: var(--background-color);
+    line-height: 0;
+    font-size: 0;
+    text-indent: -9999px;
+
+    background: transparent;
+    border: none;
+    padding: 0;
+    margin-right: 16px;
+    outline: none;
+
+    transition: margin .2s ease-out;
+    z-index: 5;
+}
+
+@media (min-width: 760px) {
+    .menu-toggle {
+        display: none;
+    }
+}
+
+.menu-toggle::before {
+    display: block;
+    content: '';
+    background: url('../images/burger.svg') no-repeat center;
+    height: 28px;
+    width: 28px;
+}
+/* /--- Navigation MENU --- */
+
+.library-version {
+    position: relative;
+    top: -4px;
+    margin-left: 3px;
+
+    color: rgba(255,255,255,.7);
+    font-size: 13px;
+    font-weight: normal;
+    line-height: 16px;
+}
+
+.filter-section {
+    z-index: 0;
+}
+
+.no-js .filter-section {
+    display: none;
+}
+
+@media (min-width: 760px) {
+    .filter-section {
+        padding: 5px 0 5px;
+    }
+}
+/* --- Navigation controls --- */
+.navigation-controls {
+    display: flex;
+    margin-left: 4px;
+}
+
+@media (min-width: 760px) {
+    .navigation-controls {
+        align-items: center;
+    }
+}
+
+.no-js .navigation-controls {
+    display: none;
+}
+
+.navigation-controls--btn {
+    display: inline-flex;
+    align-items: center;
+    justify-content: center;
+    width: 40px;
+    height: 40px;
+    border-radius: 50%;
+    background-color: inherit;
+    background-position: 50% 50%;
+    padding: 0;
+    border: none;
+    cursor: pointer;
+    font-size: 0;
+    line-height: 0;
+    transition: background-color 200ms ease-in-out;
+    will-change: background-color;
+}
+
+.navigation-controls--btn:hover {
+    background-color: var(--white-10);
+}
+
+.navigation-controls--theme {
+    background-image: url("../images/theme-toggle.svg");
+    background-repeat: no-repeat;
+}
+
+@media (max-width: 759px) {
+    .navigation-controls--theme {
+        display: none;
+    }
+}
+
+.navigation-controls--homepage {
+    background-image: url("../images/homepage.svg");
+    background-repeat: no-repeat;
+    background-size:  24px 24px;
+}
+
+@media (max-width: 759px) {
+    .navigation-controls--homepage {
+        display: none;
+    }
+}
+
+.navigation .platform-selector:not([data-active]) {
+    color: #fff;
+}
+/* /--- Navigation controls --- */
+/* /--- Navigation styles --- */
+
+/* --- Layout styles --- */
+
+#container {
+    display: flex;
+    flex: 1 1 auto;
+    min-height: 0; /* full height exclude header */
+}
+
+#container > .sidebar, #container > #main {
+    overflow: auto;
+}
+
+#main {
+    display: flex;
+    flex-direction: column;
+    flex: 1 1 0; /* full width, but no affects for sidebar */
+}
+
+.sidebar {
+    display: flex;
+    flex-direction: column;
+    box-sizing: border-box;
+    border-right: 1px solid var(--border-color);
+    width: var(--sidebar-width);
+}
+
+.no-js .sidebar {
+    display: none;
+}
+
+@media (max-width: 759px) {
+    #container {
+        position: relative;
+    }
+
+    .sidebar {
+        position: absolute;
+        top: 0;
+        bottom: 0;
+        box-sizing: border-box;
+        background: var(--background-color);
+        margin-left: calc(-1 * var(--sidebar-width));
+        transition: margin .2s ease-out;
+        z-index: 4;
+    }
+
+    .sidebar.open {
+        margin-left: 0;
+    }
+
+    .sidebar.open ~ #main .navigation-controls--search {
+        display: none;
+    }
+
+    .sidebar.open ~ #main .menu-toggle {
+        margin-left: var(--sidebar-width);
+    }
+}
+
+.sidebar--inner {
+    font-size: 12px;
+    font-weight: 400;
+    line-height: 16px;
+    padding-top: 22px;
+    padding-bottom: 16px;
+}
+/* /--- Layout styles --- */
+
+/* --- Main Content styles --- */
+.main-content {
+    padding-bottom: var(--bottom-spacing);
+    margin-left: auto;
+    margin-right: auto;
+    max-width: var(--max-width);
+    width: 100%;
+    z-index: 0;
+}
+
+.main-content > * {
+    margin-left: var(--horizontal-spacing-for-content);
+    margin-right: var(--horizontal-spacing-for-content);
+}
+
+.main-content .content > hr {
+    margin: 30px 0;
+    border-top: 3px double #8c8b8b;
+}
+
+.main-content :is(h1, h2) {
+    font-weight: 530;
+}
+/* /--- Main Content styles --- */
+
+/* /--- Breadcrumbs styles --- */
+.breadcrumbs, .breadcrumbs a, .breadcrumbs a:hover {
+    margin-top: var(--breadcrumb-margin);
+    color: var(--breadcrumb-font-color);
+    overflow-wrap: break-word;
+}
+
+.breadcrumbs .delimiter {
+    margin: auto 2px;
+}
+
+.breadcrumbs .current {
+    color: var(--default-font-color);
+}
+/* /--- Breadcrumbs styles --- */
+
+.tabs-section,
+.platform-hinted > .platform-bookmarks-row {
+    margin-left: -8px;
+    margin-right: -8px;
+}
+
+.section-tab,
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark {
+    border: 0;
+    padding: 11px 3px;
+    margin: 0 8px;
+    cursor: pointer;
+    outline: none;
+    font-size: var(--default-font-size);
+    background-color: transparent;
+    color: var(--inactive-section-color);
+    border-bottom: 1px solid var(--inactive-tab-border-color);
+}
+
+.platform-hinted > .platform-bookmarks-row {
+    margin-bottom: 16px;
+}
+
+.no-js .platform-bookmarks-row + .sourceset-dependent-content {
+    margin-top: 8px;
+}
+
+.no-js .platform-bookmarks-row + .sourceset-dependent-content:last-of-type {
+    margin-top: 0;
+}
+
+.section-tab:hover {
+    color: var(--default-font-color);
+    border-bottom: 2px solid var(--default-font-color);
+}
+
+.section-tab[data-active=''] {
+    color: var(--active-section-color);
+    border-bottom: 2px solid var(--active-tab-border-color);
+}
+
+.tabs-section-body > div {
+    margin-top: 12px;
+}
+
+.tabs-section-body .with-platform-tabs {
+    padding-top: 12px;
+    padding-bottom: 12px;
+}
+
+.cover > .platform-hinted {
+    padding-bottom: 12px;
+}
+
+.cover {
+    display: flex;
+    flex-direction: column;
+}
+
+.cover .platform-hinted.with-platform-tabs .sourceset-dependent-content > .block ~ .symbol {
+    padding-top: 16px;
+    padding-left: 0;
+}
+
+.cover .sourceset-dependent-content > .block {
+    padding: 16px 0;
+    font-size: 18px;
+    line-height: 28px;
+}
+
+.cover .platform-hinted.with-platform-tabs .sourceset-dependent-content > .block {
+    padding: 0;
+    font-size: var(--default-font-size);
+}
+
+.cover ~ .divergent-group {
+    margin-top: 24px;
+    padding: 24px 8px 8px 8px;
+}
+
+.cover ~ .divergent-group .main-subrow .symbol {
+    width: 100%;
+}
+
+.main-content p.paragraph,
+.sample-container, blockquote,
+.content > .symbol {
+    margin-top: 8px;
+}
+
+blockquote,
+.content > .symbol:first-of-type,
+p.paragraph:first-child,
+.brief p.paragraph {
+    margin-top: 0;
+}
+
+.content .kdoc-tag > p.paragraph {
+    margin-top: 0;
+}
+
+.content h4 {
+    margin-bottom: 0;
+}
+
+.divergent-group {
+    background-color: var(--background-color);
+    padding: 16px 0 8px 0;
+    margin-bottom: 2px;
+}
+
+.divergent-group .table-row, tbody > tr {
+    border-bottom: 1px solid var(--border-color);
+}
+
+.divergent-group .table-row:last-of-type, tbody > tr:last-of-type {
+    border-bottom: none;
+}
+
+.title > .divergent-group:first-of-type {
+    padding-top: 0;
+}
+
+.sample-container, div.CodeMirror {
+    position: relative;
+    display: flex;
+    flex-direction: column;
+}
+
+code.paragraph {
+    display: block;
+}
+
+.overview > .navButton {
+    position: absolute;
+    align-items: center;
+    display: flex;
+    justify-content: flex-end;
+    padding: 2px 2px 2px 0;
+    margin-right: 5px;
+    cursor: pointer;
+}
+
+.strikethrough {
+    text-decoration: line-through;
+}
+
+/* Workaround for Firefox  https://github.com/Kotlin/dokka/issues/3156 */
+@-moz-document url-prefix() {
+    .strikethrough {
+        position: relative;
+        text-decoration: none;
+    }
+
+    /* complex selectors here are required to handle multiline cases */
+    .strikethrough::after, .strikethrough span:after  {
+        content: '';
+        position: absolute;
+        top: 7px;
+        left: 0;
+        right: 0;
+        height: 1px;
+        background-color: currentColor;
+        z-index: 1;
+    }
+}
+
+.symbol:empty {
+    padding: 0;
+}
+
+.symbol:not(.token), code {
+    background-color: var(--code-background);
+    align-items: center;
+    box-sizing: border-box;
+    white-space: pre-wrap;
+    font-family: var(--default-monospace-font-family);
+    font-size: var(--default-font-size);
+}
+
+.symbol:not(.token), code.block {
+    display: block;
+    padding: 12px 32px 12px 12px;
+    border-radius: 8px;
+    line-height: 24px;
+    position: relative;
+}
+
+code {
+    overflow-x: auto;
+    max-width: 100%;
+}
+
+code:not(.block) {
+    display: inline-block;
+    vertical-align: bottom;
+}
+
+.symbol > a {
+    color: var(--hover-link-color);
+}
+
+.copy-icon {
+    cursor: pointer;
+}
+
+.sample-container span.copy-icon {
+    display: none;
+}
+
+.js .sample-container:hover span.copy-icon {
+    display: inline-block;
+}
+
+.sample-container span.copy-icon::before {
+    width: 24px;
+    height: 24px;
+    display: inline-block;
+    content: '';
+    /* masks are required if you want to change color of the icon dynamically instead of using those provided with the SVG */
+    -webkit-mask: url("../images/copy-icon.svg") no-repeat 50% 50%;
+    mask: url("../images/copy-icon.svg") no-repeat 50% 50%;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: var(--copy-icon-color);
+}
+
+.sample-container span.copy-icon:hover::before {
+    background-color: var(--copy-icon-hover-color);
+}
+
+.copy-popup-wrapper {
+    display: none;
+    align-items: center;
+    position: absolute;
+    z-index: 1000;
+    background: var(--background-color);
+    font-weight: normal;
+    font-family: var(--default-font-family);
+    width: max-content;
+    font-size: var(--default-font-size);
+    cursor: default;
+    border: 1px solid #D8DCE1;
+    box-sizing: border-box;
+    box-shadow: 0 5px 10px var(--ring-popup-shadow-color);
+    border-radius: 3px;
+    color: var(--default-font-color);
+}
+
+.copy-popup-wrapper > .copy-popup-icon::before {
+    content: url("../images/copy-successful-icon.svg");
+    padding: 8px;
+}
+
+.copy-popup-wrapper > .copy-popup-icon {
+    position: relative;
+    top: 3px;
+}
+
+.copy-popup-wrapper.popup-to-left {
+    /* since it is in position absolute we can just move it to the left to make it always appear on the left side of the icon */
+    left: -15em;
+}
+
+.table-row:hover .copy-popup-wrapper.active-popup,
+.sample-container:hover .copy-popup-wrapper.active-popup {
+    display: flex !important;
+}
+
+.copy-popup-wrapper:hover {
+    font-weight: normal;
+}
+
+.copy-popup-wrapper > span:last-child {
+    padding-right: 14px;
+}
+
+.symbol .top-right-position, .sample-container .top-right-position {
+    /* it is important for a parent to have a position: relative */
+    position: absolute;
+    top: 8px;
+    right: 8px;
+}
+
+.sideMenuPart > .overview {
+    display: flex;
+    align-items: center;
+    position: relative;
+    user-select: none; /* there's a weird bug with text selection */
+    padding: 8px 0;
+}
+
+.sideMenuPart a {
+    display: block;
+    align-items: center;
+    color: var(--default-font-color);
+    overflow: hidden;
+    padding-left: 23px;
+}
+
+.sideMenuPart a:hover {
+    text-decoration: none;
+    color: var(--default-font-color);
+}
+
+.sideMenuPart > .overview:before {
+    box-sizing: border-box;
+    content: '';
+    top: 0;
+    width: var(--sidebar-width);
+    right: 0;
+    bottom: 0;
+    position: absolute;
+    z-index: -1;
+}
+
+.overview:hover:before {
+    background-color: var(--navigation-highlight-color);
+}
+
+#nav-submenu {
+    padding-left: 24px;
+}
+
+.sideMenuPart {
+    padding-left: 12px;
+    box-sizing: border-box;
+}
+
+.sideMenuPart.hidden > .overview .navButtonContent::before {
+    transform: rotate(0deg);
+}
+
+.sideMenuPart > .overview .navButtonContent::before {
+    content: '';
+
+    -webkit-mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    mask: url("../images/arrow_down.svg") no-repeat 50% 50%;
+    -webkit-mask-size: cover;
+    mask-size: cover;
+    background-color: var(--default-font-color);
+
+    display: flex;
+    flex-direction: row;
+    align-items: center;
+    justify-content: center;
+    transform: rotate(90deg);
+    width: 16px;
+    height: 16px;
+}
+
+.sideMenuPart[data-active] > .overview .navButtonContent::before {
+    background-color: var(--default-white);
+}
+
+.sideMenuPart.hidden > .navButton .navButtonContent::after {
+    content: '\02192';
+}
+
+.sideMenuPart.hidden > .sideMenuPart {
+    display: none;
+}
+
+.overview .nav-link-grid {
+    display: grid;
+    grid-template-columns: 16px auto; /* first is the icon, then name */
+    grid-gap: 6px;
+    align-items: center;
+}
+
+.nav-icon {
+    width: 16px;
+    height: 16px;
+}
+
+.nav-icon.class::before {
+    content: url("../images/nav-icons/class.svg");
+}
+
+.nav-icon.class-kt::before {
+    content: url("../images/nav-icons/class-kotlin.svg");
+}
+
+.nav-icon.function::before {
+    content: url("../images/nav-icons/function.svg");
+}
+
+.nav-icon.enum-class::before {
+    content: url("../images/nav-icons/enum.svg");
+}
+
+.nav-icon.enum-class-kt::before {
+    content: url("../images/nav-icons/enum-kotlin.svg");
+}
+
+.nav-icon.annotation-class::before {
+    content: url("../images/nav-icons/annotation.svg");
+}
+
+.nav-icon.annotation-class-kt::before {
+    content: url("../images/nav-icons/annotation-kotlin.svg");
+}
+
+.nav-icon.abstract-class::before {
+    content: url("../images/nav-icons/abstract-class.svg");
+}
+
+.nav-icon.abstract-class-kt::before {
+    content: url("../images/nav-icons/abstract-class-kotlin.svg");
+}
+
+.nav-icon.exception-class::before {
+    content: url("../images/nav-icons/exception-class.svg");
+}
+
+.nav-icon.interface::before {
+    content: url("../images/nav-icons/interface.svg");
+}
+
+.nav-icon.interface-kt::before {
+    content: url("../images/nav-icons/interface-kotlin.svg");
+}
+
+.nav-icon.object::before {
+    content: url("../images/nav-icons/object.svg");
+}
+
+.nav-icon.typealias-kt::before {
+    content: url("../images/nav-icons/typealias-kotlin.svg");
+}
+
+.nav-icon.val::before {
+    content: url("../images/nav-icons/field-value.svg");
+}
+
+.nav-icon.var::before {
+    content: url("../images/nav-icons/field-variable.svg");
+}
+
+.filtered > a, .filtered > .navButton {
+    display: none;
+}
+
+
+.brief {
+    white-space: pre-wrap;
+    overflow: hidden;
+}
+
+h1.cover {
+    font-size: 52px;
+    line-height: 56px;
+    letter-spacing: -1.5px;
+    margin-bottom: 0;
+    padding-bottom: 32px;
+    display: block;
+}
+
+@media (max-width: 1119px) {
+    h1.cover {
+        font-size: 48px;
+        line-height: 48px;
+        padding-bottom: 8px;
+    }
+}
+
+@media (max-width: 759px) {
+    h1.cover {
+        font-size: 32px;
+        line-height: 32px;
+    }
+}
+
+.UnderCoverText {
+    font-size: 16px;
+    line-height: 28px;
+}
+
+.UnderCoverText code {
+    font-size: inherit;
+}
+
+.UnderCoverText table {
+    margin: 8px 0 8px 0;
+    word-break: break-word;
+}
+
+@media (max-width: 960px) {
+    .UnderCoverText table {
+        display: block;
+        word-break: normal;
+        overflow:  auto;
+    }
+}
+
+.main-content a:not([data-name]) {
+    padding-bottom: 2px;
+    border-bottom: 1px solid var(--border-color);
+    cursor: pointer;
+    text-decoration: none;
+    color: inherit;
+    font-size: inherit;
+    line-height: inherit;
+    transition: color .1s, border-color .1s;
+}
+
+.main-content a:hover {
+    border-bottom-color: unset;
+    color: inherit
+}
+
+a small {
+    font-size: 11px;
+    margin-top: -0.6em;
+    display: block;
+}
+
+p.paragraph img {
+    display: block;
+}
+
+.deprecation-content {
+    margin: 20px 10px;
+    border:1px solid var(--border-color);
+    padding: 13px 15px 16px 15px;
+}
+
+.deprecation-content > h3 {
+    margin-top: 0;
+    margin-bottom: 0;
+}
+
+.deprecation-content > h4 {
+    font-size: 16px;
+    margin-top: 15px;
+    margin-bottom: 0;
+}
+
+.deprecation-content code.block {
+    padding: 5px 10px;
+    display: inline-block;
+}
+
+.deprecation-content .footnote {
+    margin-left: 25px;
+    font-size: 13px;
+    font-weight: bold;
+    display: block;
+}
+
+.deprecation-content .footnote > p {
+    margin: 0;
+}
+
+[data-filterable-current=''] {
+    display: none !important;
+}
+
+.platform-tags, .filter-section {
+    display: flex;
+    flex-wrap: wrap;
+    margin-bottom: -8px;
+    margin-left: -4px;
+}
+
+.platform-tag {
+    --platform-tag-color: #bababb;
+    border: 0 none;
+    margin-right: 4px;
+    margin-bottom: 8px;
+
+    font-family: var(--default-font-family);
+    font-size: 13px;
+    line-height: 1.5;
+    text-transform: capitalize;
+}
+
+.platform-tag.js-like, .platform-tag.jvm-like, .platform-tag.wasm-like {
+    text-transform: uppercase;
+}
+
+.filter-section .platform-tag {
+    cursor: pointer;
+    border-radius: 4px;
+    padding: 2px 16px;
+}
+
+.filter-section .platform-tag.jvm-like[data-active], .platform-tags .platform-tag.jvm-like {
+    --platform-tag-color: #4dbb5f;
+}
+
+.filter-section .platform-tag.js-like[data-active], .platform-tags .platform-tag.js-like {
+    --platform-tag-color: #ffc700;
+}
+
+.filter-section .platform-tag.native-like[data-active], .platform-tags .platform-tag.native-like {
+    --platform-tag-color: #E082F3;
+}
+
+.filter-section .platform-tag.wasm-like[data-active], .platform-tags .platform-tag.wasm-like {
+    --platform-tag-color: #9585F9;
+}
+
+.filter-section .platform-tag[data-active]:hover {
+    color: #fff;
+    background-color: rgba(186, 186, 187, .7);
+}
+
+.filter-section .platform-tag:not([data-active]) {
+    color: #fff;
+    /* Safari doesn't work correctly for `outline` with `border-radius` */
+    /* outline: 1px solid rgba(255,255,255,.6); */
+    /* ...use `box-shadow` instead: */
+    box-shadow: 0 0 0 1px rgb(255 255 255 / 60%);
+    background-color: rgba(255,255,255,.05);
+}
+
+.filter-section .platform-tag[data-active] {
+    color: #19191c;
+    background-color: var(--platform-tag-color);
+}
+
+.platform-tags .platform-tag {
+    display: flex;
+    align-items: center;
+}
+
+.platform-tags .platform-tag::before {
+    display: inline-block;
+    content: '';
+    border-radius: 50%;
+    background: var(--platform-tag-color);
+    margin: 0 4px 0 8px;
+    height: 8px;
+    width: 8px;
+
+    font-size: 13px;
+    line-height: 1.6;
+}
+
+td.content {
+    padding-left: 24px;
+    padding-top: 16px;
+    display: flex;
+    flex-direction: column;
+}
+
+.main-subrow {
+    display: flex;
+    flex-direction: row;
+    padding: 0;
+    flex-wrap: wrap;
+}
+
+.main-subrow > div {
+    margin-bottom: 8px;
+}
+
+.main-subrow > div > span {
+    display: flex;
+    position: relative;
+}
+
+.js .main-subrow:hover .anchor-icon {
+    opacity: 1;
+    transition: 0.2s;
+}
+
+.main-subrow .anchor-icon {
+    opacity: 0;
+    transition: 0.2s 0.5s;
+}
+
+.main-subrow .anchor-icon::before {
+    content: url("../images/anchor-copy-button.svg");
+}
+
+.main-subrow .anchor-icon:hover {
+    cursor: pointer;
+}
+
+.main-subrow .anchor-icon:hover > svg path {
+    fill: var(--hover-link-color);
+}
+
+@media (hover: none) {
+    .main-subrow .anchor-icon {
+        display: none;
+    }
+}
+
+.main-subrow .anchor-wrapper {
+    position: relative;
+    width: 24px;
+    height: 16px;
+    margin-left: 3px;
+}
+
+.inline-flex {
+    display: inline-flex;
+}
+
+.platform-hinted {
+    flex: auto;
+    display: block;
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark {
+    min-width: 64px;
+    background: inherit;
+    flex: none;
+    order: 5;
+    align-self: flex-start;
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark:hover {
+    color: var(--default-font-color);
+    border-bottom: 2px solid var(--default-font-color);
+}
+
+.platform-hinted > .platform-bookmarks-row > .platform-bookmark[data-active=''] {
+    border-bottom: 2px solid var(--active-tab-border-color);
+    color: var(--active-section-color);
+}
+
+.no-js .platform-bookmarks-row, .no-js .tabs-section {
+    display: none;
+}
+
+.js .platform-hinted > .content:not([data-active]),
+.js .tabs-section-body *[data-togglable]:not([data-active]) {
+    display: none;
+}
+
+/* Work around an issue: https://github.com/JetBrains/kotlin-playground/issues/91
+Applies for main description blocks with platform tabs.
+Just in case of possible performance degradation it excluding tabs with briefs on classlike page */
+#content > div:not(.tabbedcontent) .sourceset-dependent-content:not([data-active]) {
+    display: block !important;
+    visibility: hidden;
+    height: 0;
+    position: fixed;
+    top: 0;
+}
+
+.with-platform-tags {
+    display: flex;
+}
+
+.with-platform-tags ~ .main-subrow {
+    padding-top: 8px;
+}
+
+.cover .with-platform-tabs {
+    font-size: var(--default-font-size);
+}
+
+.cover > .with-platform-tabs > .content {
+    padding: 8px 16px;
+    border: 1px solid var(--border-color);
+}
+
+.cover > .block {
+    padding-top: 48px;
+    padding-bottom: 24px;
+    font-size: 18px;
+    line-height: 28px;
+}
+
+.cover > .block:empty {
+    padding-bottom: 0;
+}
+
+.parameters.wrapped > .parameter {
+    display: block;
+}
+
+.table-row .inline-comment {
+    padding-top: 8px;
+    padding-bottom: 8px;
+}
+
+.table-row .platform-hinted .sourceset-dependent-content .brief,
+.table-row .platform-hinted .sourceset-dependent-content .inline-comment {
+    padding: 8px;
+}
+
+.sideMenuPart[data-active] > .overview:before {
+    background: var(--sidemenu-section-active-color);
+}
+
+.sideMenuPart[data-active] > .overview > a {
+    color: var(--default-white);
+}
+
+.table {
+    display: flex;
+    flex-direction: column;
+}
+
+.table-row {
+    display: flex;
+    flex-direction: column;
+    border-bottom: 1px solid var(--border-color);
+    padding: 11px 0 12px 0;
+    background-color: var(--background-color);
+}
+
+.table-row:last-of-type {
+    border-bottom: none;
+}
+
+.table-row .brief-comment {
+    color: var(--brief-color);
+}
+
+.platform-dependent-row {
+    display: grid;
+    padding-top: 8px;
+}
+
+.title-row {
+    display: grid;
+    grid-template-columns: auto auto 7em;
+    width: 100%;
+}
+
+@media print, (min-width: 960px) {
+    .title-row {
+        grid-template-columns: 20% auto 7em;
+    }
+}
+
+.keyValue {
+    display: grid;
+    grid-gap: 8px;
+}
+
+@media print, (min-width: 960px) {
+    .keyValue {
+        grid-template-columns: 20% 80%;
+    }
+    .keyValue > div:first-child {
+        word-break: break-word;
+    }
+}
+
+@media print, (max-width: 960px) {
+    div.wrapper {
+        width: auto;
+        margin: 0;
+    }
+
+    header, section, footer {
+        float: none;
+        position: static;
+        width: auto;
+    }
+
+    header {
+        padding-right: 320px;
+    }
+
+    section {
+        border: 1px solid #e5e5e5;
+        border-width: 1px 0;
+        padding: 20px 0;
+        margin: 0 0 20px;
+    }
+
+    header a small {
+        display: inline;
+    }
+
+    header ul {
+        position: absolute;
+        right: 50px;
+        top: 52px;
+    }
+}
+
+.anchor-highlight {
+    border: 1px solid var(--hover-link-color) !important;
+    box-shadow: 0 0 0 0.2em #c8e1ff;
+    margin-top: 0.2em;
+    margin-bottom: 0.2em;
+}
+
+.filtered-message {
+    margin: 25px;
+    font-size: 20px;
+    font-weight: bolder;
+}
+
+div.runnablesample {
+    height: fit-content;
+}
+
+/* --- footer --- */
+.footer {
+    clear: both;
+    display: flex;
+    align-items: center;
+    position: relative;
+    min-height: var(--footer-height);
+    font-size: 12px;
+    line-height: 16px;
+    letter-spacing: 0.2px;
+    color: var(--footer-font-color);
+    margin-top: auto;
+    background-color: var(--footer-background);
+}
+
+.footer span.go-to-top-icon {
+    border-radius: 2em;
+    padding: 11px 10px !important;
+    background-color: var(--footer-go-to-top-color);
+}
+
+.footer span.go-to-top-icon > a::before {
+    content: url("../images/go-to-top-icon.svg");
+}
+
+.footer > span:first-child {
+    margin-left: var(--horizontal-spacing-for-content);
+    padding-left: 0;
+}
+
+.footer > span:last-child {
+    margin-right: var(--horizontal-spacing-for-content);
+    padding-right: 0;
+}
+
+.footer > span {
+    padding: 0 16px;
+}
+
+.footer a {
+    color: var(--breadcrumb-font-color);
+}
+
+.footer span.go-to-top-icon > #go-to-top-link {
+    padding: 0;
+    border: none;
+}
+
+.footer .padded-icon {
+    padding-left: 0.5em;
+}
+
+.footer .padded-icon::before {
+    content: url("../images/footer-go-to-link.svg");
+}
+/* /--- footer --- */
+
+/* Logo styles */
+:root {
+    --dokka-logo-image-url: url('../images/logo-icon.svg');
+    --dokka-logo-height: 50px;
+    --dokka-logo-width: 50px;
+}
+
+.library-name--link {
+    display: flex;
+    align-items: center;
+    color: #fff;
+    font-weight: 530;
+}
+
+.library-name--link::before {
+    content: '';
+    background: var(--dokka-logo-image-url) center no-repeat;
+    background-size: var(--dokka-logo-height) var(--dokka-logo-width);
+    margin-right: 5px;
+    width: var(--dokka-logo-height);
+    height: var(--dokka-logo-width);
+}
+
+@media (max-width: 759px) {
+    .library-name--link::before {
+        display: none;
+    }
+}
+/* / Logo styles */
+
+/*
+the hack to hide the headers inside tabs for a package page because each tab
+has only one header, and the header text is the same as the tab name, so no point in showing it
+*/
+.main-content[data-page-type="package"] .tabs-section-body h2 {
+    display: none;
+}
diff --git a/docs/dokka/v0.2.0/version.json b/docs/dokka/v0.2.0/version.json
new file mode 100644
index 00000000..327eb209
--- /dev/null
+++ b/docs/dokka/v0.2.0/version.json
@@ -0,0 +1 @@
+{"version":"v0.2.0"}
\ No newline at end of file